http://subtiwiki.uni-goettingen.de/wiki/api.php?action=feedcontributions&user=Heilers&feedformat=atom
SubtiWiki - User contributions [en]
2024-03-29T14:29:18Z
User contributions
MediaWiki 1.30.0
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YetJ&diff=205966
YetJ
2014-07-11T07:52:21Z
<p>Heilers: /* Database entries */</p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yetJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || pH-sensitive calcium leak across membranes<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200 yetJ]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 9.137 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 642 bp, 214 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yezD]]'', ''[[yetK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07200 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yetJ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yetJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU07200<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12866]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' BI1 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
** cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''Structure:''' [http://pdbj.org/mine/summary/4pgu 4PGU]<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O31539 O31539]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07200]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 yetJ] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<br />
[[Category:Protein-coding genes]]<br />
<br />
<pubmed> 24904158</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YetJ&diff=205965
YetJ
2014-07-11T07:52:09Z
<p>Heilers: /* Database entries */</p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yetJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || pH-sensitive calcium leak across membranes<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200 yetJ]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 9.137 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 642 bp, 214 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yezD]]'', ''[[yetK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07200 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yetJ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yetJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU07200<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12866]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' BI1 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
** cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''Structure:''' [http://pdbj.org/mine/summary/4pgu 4PGU]<br />
<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O31539 O31539]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07200]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 yetJ] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<br />
[[Category:Protein-coding genes]]<br />
<br />
<pubmed> 24904158</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YetJ&diff=205964
YetJ
2014-07-11T07:51:48Z
<p>Heilers: /* Database entries */</p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yetJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || pH-sensitive calcium leak across membranes<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200 yetJ]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 9.137 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 642 bp, 214 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yezD]]'', ''[[yetK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07200 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yetJ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yetJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU07200<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12866]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' BI1 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
** cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''Structure:''' <br />
[http://pdbj.org/mine/summary/4pgu 4PGU]<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O31539 O31539]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07200]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 yetJ] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<br />
[[Category:Protein-coding genes]]<br />
<br />
<pubmed> 24904158</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YetJ&diff=205963
YetJ
2014-07-11T07:49:38Z
<p>Heilers: /* Database entries */</p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yetJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || pH-sensitive calcium leak across membranes<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200 yetJ]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 9.137 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 642 bp, 214 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yezD]]'', ''[[yetK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07200 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yetJ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yetJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU07200<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12866]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' BI1 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
** cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''Structure:''' 4PGU <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O31539 O31539]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07200]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 yetJ] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<br />
[[Category:Protein-coding genes]]<br />
<br />
<pubmed> 24904158</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YetJ&diff=205962
YetJ
2014-07-11T07:47:11Z
<p>Heilers: </p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yetJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || pH-sensitive calcium leak across membranes<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200 yetJ]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 9.137 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 642 bp, 214 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yezD]]'', ''[[yetK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07200 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yetJ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yetJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU07200<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12866]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' BI1 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
** cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O31539 O31539]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07200]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 yetJ] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<br />
[[Category:Protein-coding genes]]<br />
<br />
<pubmed> 24904158</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YetJ&diff=205961
YetJ
2014-07-11T07:46:12Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yetJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200 yetJ]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 9.137 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 642 bp, 214 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yezD]]'', ''[[yetK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07200 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yetJ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yetJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU07200<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12866]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' BI1 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
** cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O31539 O31539]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07200]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 yetJ] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<br />
[[Category:Protein-coding genes]]<br />
<br />
<pubmed> 24904158</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YetJ&diff=205960
YetJ
2014-07-11T07:45:47Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' unknown <br/><br/><br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yetJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200 yetJ]<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 9.137 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 642 bp, 214 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yezD]]'', ''[[yetK]]''<br />
|-<br />
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07200 DNA_with_flanks]<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yetJ_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yetJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07200]]<br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br/><br/><br/><br/><br />
<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[membrane proteins]]}},<br />
{{SubtiWiki category|[[proteins of unknown function]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU07200<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12866]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' BI1 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:'''<br />
<br />
* '''[[Localization]]:'''<br />
** cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07200&redirect=T BSU07200]<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O31539 O31539]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07200]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yetJ_787992_788636_1 yetJ] {{PubMed|22383849}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<pubmed> 24904158<br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Rnc&diff=147522
Rnc
2011-11-30T10:25:48Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' [[RNase]] III; required for the degradation of sense/antisense transcripts in Gram positive, low GC bacteria<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''rnc''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''rncS ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || endoribonuclease III <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || cleaves both 5'- and 3'-sites <br/>of the small cytoplasmic RNA precursor (''[[scr]]'')<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 8.076 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 747 bp, 249 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[acpA]]'', ''[[smc]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13466&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:rnc_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}},<br />
{{SubtiWiki category|[[translation]]}},<br />
{{SubtiWiki category|[[protein secretion]]}},<br />
{{SubtiWiki category|[[essential genes]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[stringent response]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU15930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
''rnc'' is essential [http://www.ncbi.nlm.nih.gov/sites/entrez/11123676 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rnc-smc-ftsY.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11537]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Endonucleolytic cleavage to 5'-phosphomonoester (according to Swiss-Prot) cleaves both 5'- and 3'-sites of the small cytoplasmic RNA precursor (''[[scr]]'')<br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:''' <br />
<br />
* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P51833 P51833]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15930]<br />
<br />
* '''E.C. number:''' 3.1.26.3<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[rnc]]-[[smc]]-[[ftsY]]'' {{PubMed|11021934}}<br />
<br />
* '''Sigma factor:''' [[SigA]] {{PubMed|11021934}}<br />
<br />
* '''Regulation:''' <br />
** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed|11948165}}<br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
[[Ciaran Condon]], IBPC, Paris, France [http://www.ibpc.fr/UPR9073/condon/index_en.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>9393702 11123676 7527387 9677377 17576666, 11021934 6409421 22123973</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Rnc&diff=147521
Rnc
2011-11-30T10:24:56Z
<p>Heilers: </p>
<hr />
<div>* '''Description:''' [[RNase]] III; required for the degradation of sense/antisense transcripts in Gram positive, low GC bacteria<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''rnc''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''rncS ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || endoribonuclease III <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || cleaves both 5'- and 3'-sites <br/>of the small cytoplasmic RNA precursor (''[[scr]]'')<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 8.076 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 747 bp, 249 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[acpA]]'', ''[[smc]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13466&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:rnc_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}},<br />
{{SubtiWiki category|[[translation]]}},<br />
{{SubtiWiki category|[[protein secretion]]}},<br />
{{SubtiWiki category|[[essential genes]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[stringent response]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU15930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
''rnc'' is essential [http://www.ncbi.nlm.nih.gov/sites/entrez/11123676 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rnc-smc-ftsY.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11537]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Endonucleolytic cleavage to 5'-phosphomonoester (according to Swiss-Prot) cleaves both 5'- and 3'-sites of the small cytoplasmic RNA precursor (''[[scr]]'')<br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:''' <br />
<br />
* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P51833 P51833]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15930]<br />
<br />
* '''E.C. number:''' 3.1.26.3<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[rnc]]-[[smc]]-[[ftsY]]'' {{PubMed|11021934}}<br />
<br />
* '''Sigma factor:''' [[SigA]] {{PubMed|11021934}}<br />
<br />
* '''Regulation:''' <br />
** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed|11948165}}<br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
[[Ciaran Condon]], IBPC, Paris, France [http://www.ibpc.fr/UPR9073/condon/index_en.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>9393702 11123676 7527387 9677377 17576666, 11021934 6409421 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Rnc&diff=147520
Rnc
2011-11-30T10:24:13Z
<p>Heilers: </p>
<hr />
<div>* '''Description:''' [[RNase]] III<br/><br/>; required for the degradation of sense/antisense transcripts in Gram positive, low GC bacteria<br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''rnc''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''rncS ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || endoribonuclease III <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || cleaves both 5'- and 3'-sites <br/>of the small cytoplasmic RNA precursor (''[[scr]]'')<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 8.076 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 747 bp, 249 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[acpA]]'', ''[[smc]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13466&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:rnc_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}},<br />
{{SubtiWiki category|[[translation]]}},<br />
{{SubtiWiki category|[[protein secretion]]}},<br />
{{SubtiWiki category|[[essential genes]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[stringent response]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU15930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
''rnc'' is essential [http://www.ncbi.nlm.nih.gov/sites/entrez/11123676 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rnc-smc-ftsY.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11537]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Endonucleolytic cleavage to 5'-phosphomonoester (according to Swiss-Prot) cleaves both 5'- and 3'-sites of the small cytoplasmic RNA precursor (''[[scr]]'')<br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''[[SubtInteract|Interactions]]:''' <br />
<br />
* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P51833 P51833]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15930]<br />
<br />
* '''E.C. number:''' 3.1.26.3<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[rnc]]-[[smc]]-[[ftsY]]'' {{PubMed|11021934}}<br />
<br />
* '''Sigma factor:''' [[SigA]] {{PubMed|11021934}}<br />
<br />
* '''Regulation:''' <br />
** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed|11948165}}<br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
[[Ciaran Condon]], IBPC, Paris, France [http://www.ibpc.fr/UPR9073/condon/index_en.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>9393702 11123676 7527387 9677377 17576666, 11021934 6409421 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=RNases&diff=146225
RNases
2011-10-14T10:06:54Z
<p>Heilers: /* Reviews on RNases in Bacillus subtilis */</p>
<hr />
<div>===RNases are involved in the processing and degradation of the different classes of mRNAs, tRNAs, rRNAs and [[small RNAs]]===<br />
{{CategoryTree<br />
|Parents=<br />
* 3. [[Information processing]]<br />
** 3.2. [[RNA synthesis and degradation]]<br />
|Neighbours=<br />
* 3.2.1. [[Transcription]]<br />
* 3.2.2. [[RNA chaperones]]<br />
* 3.2.3. [[DEAD-box RNA helicases]]<br />
* 3.2.4. [[RNases]]<br />
|Related=<br />
[[RNA degradosome]]<br />
|}}<br />
<br />
__TOC__<br />
<br><br><br><br />
<br />
<br />
==Exoribonucleases==<br />
* [[rnjA|RNase J1]]: 5'-3' activity, does also have endonuclease activity<br />
<br />
* [[rph|RNase PH]]: 3'-5' activity<br />
* [[YhaM]]: 3'-5' activity<br />
* [[rnr|RNase R]]: 3'-5' activity<br />
* [[pnpA|polynucleotide phosphorylase]]: 3'-5' activity<br />
<br />
* [[nrnA|nano-RNase A]]: degrades oligonucleotides<br />
* [[nrnB|nano-RNase B]]: degrades oligonucleotides<br />
<br />
==Endoribonucleases==<br />
* [[rnjA|RNase J1]]: ssRNA endonuclease, does also have exonuclease activity<br />
* [[rnjB|RNase J2]]: ssRNA endonuclease, may also have exonuclease activity<br />
<br />
* [[rny|RNase Y]]: ssRNA endonuclease<br />
* [[rnpA|RNase P]]: ssRNA endonuclease<br />
* [[rnz|RNase Z]]: ssRNA endonuclease<br />
<br />
* [[ndoA|RNase Endo A]]<br />
<br />
* [[rnhB|RNase HII]]: cleaves RNA in RNA-DNA hybrids<br />
* [[rnhC|RNase HIII]]: cleaves RNA in RNA-DNA hybrids<br />
<br />
* [[yurI|RNase Bsn]]: extracellular RNase<br />
<br />
* [[rnc|RNase III]]: dsRNA endonuclease<br />
* [[mrnC|mini-III]]: dsRNA endonuclease<br />
* [[rnmV|RNase M5]]: dsRNA endonuclease<br />
<br />
==Labs working on RNases==<br />
* [[David Bechhofer]]<br />
* [[Ciaran Condon]]<br />
* [[Harald Putzer]]<br />
* [[Jörg Stülke]]<br />
<br />
==Reviews on RNases in ''Bacillus subtilis''==<br />
'''Additional reviews:''' {{PubMed|21957024}} <br />
<pubmed> 19215774 12794188 12490701 20659169 21334965 19767421 21976285</pubmed><br />
<br />
=Back to [[categories]]=</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=T-box&diff=143728
T-box
2011-07-27T10:46:40Z
<p>Heilers: /* Reviews on T-box regulation */</p>
<hr />
<div>The T-box element is an [[RNA switch]] that controls genes involved in amino acid metabolism.<br />
<br />
In the absence of an amino acid, the uncharged tRNA binds the T-box region in the leader region of the mRNA of the controlled gene/ operon and thereby prevents the formation of a transcription terminator. The result is gene expression of the target gene in the absence of the specific amino acid.<br />
<br />
==Complete list of genes controlled by T-box elements==<br />
<br />
* Induction by alanine limitation<br />
** ''[[alaS]]''<br />
<br />
* Induction by aspartate limitation<br />
** ''[[hisS]]-[[aspS]]'' <br />
<br />
* Induction by cysteine limitation<br />
** ''[[cysE]]-[[cysS]]-[[mrnC]]-[[yacO]]-[[yacP]]'' <br />
<br />
* Induction by glycine limitation<br />
** ''[[glyA]], [[glyQ]]-[[glyS]]'' <br />
<br />
* Induction by histidine limitation<br />
** ''[[hisS]]-[[aspS]]'' <br />
<br />
* Induction by isoleucine limitation<br />
** ''[[ileS]]'', ''[[ilvB]]-[[ilvH]]-[[ilvC]]-[[leuA]]-[[leuA]]-[[leuC]]-[[leuD]]'' <br />
<br />
* Induction by leucine limitation<br />
** ''[[leuS]]'', ''[[ilvB]]-[[ilvH]]-[[ilvC]]-[[leuA]]-[[leuA]]-[[leuC]]-[[leuD]]'' <br />
<br />
* Induction by phenyalanine limitation<br />
** ''[[pheS]]-[[pheT]]''<br />
<br />
* Induction by proline limitation<br />
** ''[[proB]]-[[proA]]'', ''[[proI]]''<br />
<br />
* Induction by serine limitation<br />
** ''[[serS]]''<br />
<br />
* Induction by threonine limitation<br />
** ''[[thrS]], [[thrZ]]-[[ywhA]]''<br />
<br />
* Induction by tryptophan limitation<br />
** ''[[rtpA]]-[[ycbK]]'', ''[[trpS]]''<br />
<br />
* Induction by tyrosine limitation<br />
** ''[[tyrS]], [[tyrZ]]''<br />
<br />
* Induction by valine limitation<br />
** ''[[valS]]'', ''[[ilvB]]-[[ilvH]]-[[ilvC]]-[[leuA]]-[[leuA]]-[[leuC]]-[[leuD]]''<br />
<br />
==Structure of a T-box ribowsitch==<br />
<br />
<pubmed> 12547201</pubmed><br />
<br />
<br />
==Reviews on T-box regulation==<br />
<br />
<pubmed> 19258532,7527891, 11917026 ,8348614,17381302 10546897 19932103 18625071 </pubmed><br />
<br />
=See also:=<br />
* [[RNA switch]]<br />
<br />
=Back to [[regulons]]=</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=CcpN_regulon&diff=142406
CcpN regulon
2011-06-08T14:24:07Z
<p>Heilers: /* Repression */</p>
<hr />
<div>{{RegulonTable|<br />
Regulator=[[CcpN]]<br />
}}<br />
<br />
= Genes in this regulon =<br />
<br />
=== Repression ===<br />
* ''[[gapB]]-[[speD]]''<br />
* ''[[pckA]]''<br />
* ''[[Sr1]]''<br />
<br />
=== Unknown ===<br />
* ''[[YhaM]]''<br />
<br />
=Back to [[regulons]]=</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YhaM&diff=142405
YhaM
2011-06-08T14:23:12Z
<p>Heilers: /* This gene is a member of the following regulons */</p>
<hr />
<div>* '''Description:''' [[RNase]], 3'-> 5' exoribonuclease <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yhaM''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[RNase]] YhaM <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || RNA degradation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.851 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 942 bp, 314 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sbcE]]'', ''[[yhaL]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12833&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yhaM_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[LexA regulon]]}},<br />
{{SubtiWiki regulon|[[CcpN regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU09930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhaONM.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12989]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 3'-5' exoribonuclease<br />
<br />
* '''Protein family:''' OB DNA-binding domain (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O07521 O07521]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09930]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
:* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yhaO]]-[[sbcE]]-[[yhaM]]'' {{PubMed|16267290}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** induced by DNA damage ([[LexA]]) {{PubMed|16267290}}<br />
** putatively regulated by [[CcpN]] {{PubMed|19732150}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[LexA]]: transcription repression {{PubMed|16267290}}<br />
<br />
* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 19732150 12399495 19553197, 16267290, 16479537,17981983, 15805522 19880604 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YhaM&diff=142404
YhaM
2011-06-08T14:22:38Z
<p>Heilers: /* This gene is a member of the following regulons */</p>
<hr />
<div>* '''Description:''' [[RNase]], 3'-> 5' exoribonuclease <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yhaM''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[RNase]] YhaM <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || RNA degradation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.851 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 942 bp, 314 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sbcE]]'', ''[[yhaL]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12833&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yhaM_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[LexA regulon]]}}<br />
{{SubtiWiki regulon|[[CcpN regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU09930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhaONM.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12989]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 3'-5' exoribonuclease<br />
<br />
* '''Protein family:''' OB DNA-binding domain (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O07521 O07521]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09930]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
:* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yhaO]]-[[sbcE]]-[[yhaM]]'' {{PubMed|16267290}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** induced by DNA damage ([[LexA]]) {{PubMed|16267290}}<br />
** putatively regulated by [[CcpN]] {{PubMed|19732150}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[LexA]]: transcription repression {{PubMed|16267290}}<br />
<br />
* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 19732150 12399495 19553197, 16267290, 16479537,17981983, 15805522 19880604 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YhaM&diff=142403
YhaM
2011-06-08T14:21:51Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' [[RNase]], 3'-> 5' exoribonuclease <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yhaM''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[RNase]] YhaM <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || RNA degradation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.851 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 942 bp, 314 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sbcE]]'', ''[[yhaL]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12833&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yhaM_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[LexA regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU09930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhaONM.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12989]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 3'-5' exoribonuclease<br />
<br />
* '''Protein family:''' OB DNA-binding domain (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O07521 O07521]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09930]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
:* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yhaO]]-[[sbcE]]-[[yhaM]]'' {{PubMed|16267290}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** induced by DNA damage ([[LexA]]) {{PubMed|16267290}}<br />
** putatively regulated by [[CcpN]] {{PubMed|19732150}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[LexA]]: transcription repression {{PubMed|16267290}}<br />
<br />
* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 19732150 12399495 19553197, 16267290, 16479537,17981983, 15805522 19880604 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YhaM&diff=142402
YhaM
2011-06-08T14:21:16Z
<p>Heilers: /* Expression and regulation */</p>
<hr />
<div>* '''Description:''' [[RNase]], 3'-> 5' exoribonuclease <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yhaM''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[RNase]] YhaM <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || RNA degradation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.851 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 942 bp, 314 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sbcE]]'', ''[[yhaL]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12833&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yhaM_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[LexA regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU09930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhaONM.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12989]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 3'-5' exoribonuclease<br />
<br />
* '''Protein family:''' OB DNA-binding domain (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O07521 O07521]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09930]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
:* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yhaO]]-[[sbcE]]-[[yhaM]]'' {{PubMed|16267290}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** induced by DNA damage ([[LexA]]) {{PubMed|16267290}}<br />
** putatively regulated by [[CcpN]] {{PubMed|19732150}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[LexA]]: transcription repression {{PubMed|16267290}}<br />
<br />
* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 12399495 19553197, 16267290, 16479537,17981983, 15805522 19880604 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YhaM&diff=142401
YhaM
2011-06-08T14:20:48Z
<p>Heilers: /* Expression and regulation */</p>
<hr />
<div>* '''Description:''' [[RNase]], 3'-> 5' exoribonuclease <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yhaM''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[RNase]] YhaM <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || RNA degradation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.851 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 942 bp, 314 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sbcE]]'', ''[[yhaL]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12833&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yhaM_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[LexA regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU09930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhaONM.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12989]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 3'-5' exoribonuclease<br />
<br />
* '''Protein family:''' OB DNA-binding domain (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O07521 O07521]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09930]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
:* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yhaO]]-[[sbcE]]-[[yhaM]]'' {{PubMed|16267290}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** induced by DNA damage ([[LexA]]) {{PubMed|16267290}}<br />
** putatively regulated by [[CcpN]] {{PubMed|19732150}}<br />
<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[LexA]]: transcription repression {{PubMed|16267290}}<br />
<br />
* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 12399495 19553197, 16267290, 16479537,17981983, 15805522 19880604 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YhaM&diff=142400
YhaM
2011-06-08T14:16:21Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' [[RNase]], 3'-> 5' exoribonuclease <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yhaM''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[RNase]] YhaM <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || RNA degradation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 5.851 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 942 bp, 314 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sbcE]]'', ''[[yhaL]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12833&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yhaM_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[Rnases]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[LexA regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU09930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhaONM.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12989]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 3'-5' exoribonuclease<br />
<br />
* '''Protein family:''' OB DNA-binding domain (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O07521 O07521]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09930]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
:* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[yhaO]]-[[sbcE]]-[[yhaM]]'' {{PubMed|16267290}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** induced by DNA damage ([[LexA]]) {{PubMed|16267290}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[LexA]]: transcription repression {{PubMed|16267290}}<br />
<br />
* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 12399495 19553197, 16267290, 16479537,17981983, 15805522 19880604 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=LicC&diff=141203
LicC
2011-04-12T07:54:06Z
<p>Heilers: /* Database entries */</p>
<hr />
<div>* '''Description:''' lichenan-specific [[PTS|phosphotransferase system]], EIIC component of the [[PTS]]<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''licC''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''celB ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || lichenan-specific [[PTS|phosphotransferase system]], <br/>EIIC component<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || lichenan uptake and phosphorylation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 48 kDa, 8.584 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1356 bp, 452 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[licA]]'', ''[[licB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15884&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:licC_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[phosphotransferase systems]]}},<br />
{{SubtiWiki category|[[utilization of specific carbon sources]]}},<br />
{{SubtiWiki category|[[membrane proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CcpA regulon]]}},<br />
{{SubtiWiki regulon|[[LicR regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU38580<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11348]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' [[PTS]] permease, lactose permease (Lac) family [http://www.ncbi.nlm.nih.gov/pubmed/10627040 PubMed] <br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' [[LicB]]-[[LicC]]<br />
<br />
* '''Localization:''' cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:'''<br />
** [http://www.rcsb.org/pdb/explore/explore.do?structureId=3QNQ 3QNQ] (EIIC component of diacetylchitobiose specific PTS from ''Bacillus cereus''; 38% identity with LicC) [http://www.ncbi.nlm.nih.gov/pubmed/21471968 PubMed]<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P46317 P46317]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU38580]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[licB]]-[[licC]]-[[licA]]-[[licH]]'' {{PubMed|8990303}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|8990303}}<br />
<br />
* '''Regulation:''' <br />
** carbon catabolite repression ([[CcpA]]) {{PubMed|8990303}}<br />
** induction by oligomeric ß-glucosides ([[LicR]]){{PubMed|8990303}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CcpA]]: transcription repression {{PubMed|8990303}}<br />
** [[LicR]]: transcription activation {{PubMed|8990303}}<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>19087206,8990303,16872404,,10438772,10627040 8990303, </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=RNA_polymerase&diff=140898
RNA polymerase
2011-04-08T14:11:02Z
<p>Heilers: /* Other temporary components */</p>
<hr />
<div>{{CategoryTree<br />
|Parents=<br />
* 3. [[Information processing]]<br />
** 3.2. [[RNA synthesis and degradation]]<br />
** 3.2.1. [[Transcription]]<br />
|Neighbours=<br />
* [[Sigma factors]]<br />
|Related=<br />
* [[protein-protein interactions]]<br />
* [[transcription]]<br />
}}<br />
__TOC__<br />
<br><br><br><br><br><br />
<br />
<br />
=='''The enzyme responsible for [[transcription]]'''==<br />
<br />
==Components of the RNA polymerase==<br />
===Core subunits===<br />
* [[RpoA]]: alpha subunit<br />
* [[RpoB]]: beta subunit<br />
* [[RpoC]]: beta' subunit<br />
<br />
* The stoichiometry of the enzyme is [[RpoA]](2)-[[RpoB]]-[[RpoC]]<br />
<br />
===[[Sigma factors]]===<br />
* In addition to the housekeeping [[sigma factor]], [[SigA]], there are several other [[sigma factors]] with different promoter recognition specifiity that are active under specific conditions (such as stress or sporulation)<br />
<br />
===Small accessory subunits===<br />
* [[RpoE]]: delta subunit<br />
* [[YloH]]: omega subunit<br />
<br />
===Other temporary components===<br />
* [[NusA]]: essential elongation factor<br />
* [[Spx]]: transcription regulator, interacts with [[RpoA]]<br />
* [[MgsR]]: transcription regulator orthologous to [[Spx]], interacts with [[RpoA]]<br />
<br />
==Back to [[protein-protein interactions]]==<br />
<br />
==References==<br />
===Reviews===<br />
<pubmed> 18599813 7708009 18410247 19889534 19489723 18280161 21233849 </pubmed><br />
===The structure of RNA polymerase===<br />
<pubmed> 12732296 12581657 11297923 19735077 </pubmed><br />
===Important original publications: {{PubMed|20817769,20724389}} ===<br />
<pubmed> 21350489 </pubmed></div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Thi-box&diff=140853
Thi-box
2011-04-03T09:45:14Z
<p>Heilers: /* Important Reviews */</p>
<hr />
<div>==Important Reviews==<br />
<br />
A [[riboswitch]] that controls the expression of the ''[[tenA]]-[[tenI]]-[[thiO]]-[[thiS]]-[[thiG]]-[[thiF]]-[[thiD]]'' and ''[[thiU]]-[[thiV]]-[[thiW]]-[[thiX]]'' operons as well as of the ''[[thiC]]'', ''[[thiT]]'', and ''[[ylmB]]'' genes in response to thiamine. Thiamine pyrophosphate binds the Thi-box resulting in reduced expression.<br />
<br />
<pubmed>16356850 12376536 11470904 12376536 17355861</pubmed></div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MecA&diff=140851
MecA
2011-04-01T14:40:10Z
<p>Heilers: /* Original Publications */</p>
<hr />
<div>* '''Description:''' buffering protein for development, dampens transitions to spore, biofilm exopolysaccharide and competence expression , targets [[ComK]] to [[ClpC]]-[[ClpP]] degradation machine (in log Phase), inhibits the transcriptional activity of [[Spo0A]]∼P by direct interaction <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''mecA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || adaptor protein <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[ComK]] degradation, regulation of competence<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 25 kDa, 4.209 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 654 bp, 218 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yjbE]]'', ''[[coiA]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13009&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:mecA_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[genetic competence]]}},<br />
{{SubtiWiki category|[[proteolysis]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU11520<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mecA.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10680]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' mecA family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[YpbH]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
** N-terminal domain (1 ... 120): recruitment of protein substrates {{PubMed|19801546}} <br />
** C-terminal domain (121 ... 218): facilitates assembly of the [[ClpC]]-[[ClpP]] oligomer and acts as a degradation tag {{PubMed|19801546}}<br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' <br />
** [[MecA]]-[[ComK]] {{PubMed|10447896}}<br />
** [[MecA]]-[[ComS]] {{PubMed|10447896}}<br />
** [[ClpC]]-[[MecA]] {{PubMed|10447896}}<br />
** [[MecA]]-[[Spo0A]] {{PubMed|21435029}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.proteopedia.org/wiki/index.php/3jtp 3JTP] (C-terminal domain) {{PubMed|19801546}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P37958 P37958]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU11520]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[mecA]]'' {{PubMed|8412687}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|8412687}}<br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP813 (spc), GP814 (aphA3) both available in the [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews: {{PubMed|19609260}}==<br />
==Original Publications==<br />
'''Additonal publications:''' {{PubMed|16525504,12598648,21435029}}<br />
<pubmed>11914365,9000055,17560370,19361434, 9890793,2113920,8817496, , 8412687,11918817, 10447896, 12028382, 8016067, 10361283, 11703662 9535081 19767395 19801546 8016066 19202088 8083167 </pubmed><br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ParB&diff=140850
ParB
2011-04-01T14:29:34Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' chromosome positioning near the pole and transport through the polar septum / antagonist of [[Soj]]-dependent inhibition of sporulation initiation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''spo0J''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0JB ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || site-specific DNA-binding protein<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || chromosome positioning before asymmetric septation, <br />
<br />
specifying its orientation, and imposing directionality on <br />
<br />
its subsequent transport through the septum; required for sporulation <br />
<br />
(antagonist of [[Soj]]-dependent inhibition of sporulation initiation)<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 32 kDa, 8.417 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 846 bp, 282 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yyaC]]'', ''[[soj]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16133&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0J_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[DNA condensation/ segregation]]}},<br />
{{SubtiWiki category|[[sporulation/ other]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU40960<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10054]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' inhibits [[Soj]] dimerization and concomitant DNA-binding activity by stimulating Soj ATPase activity {{PubMed|21235642}} <br />
<br />
* '''Protein family:''' parB family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[Noc]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' [[Spo0J]]-[[Soj]] {{PubMed|21235642}} <br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P26497 P26497]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU40960]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[soj]]-[[spo0J]]'' (according to [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html DBTBS])<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>17462018 16677298 12562803, 10852876, 10482533, 9506522, 8071208, 17932079 19450517 21235642 9663676,11532141,19450516,15659156,18854156,9159397,8866474,9778525,16925562,1900505,9364919,9701805,12950914,,14651647, 19450517, 19450516, 14563866 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ParA&diff=140849
ParA
2011-04-01T14:27:26Z
<p>Heilers: /* Original publications */</p>
<hr />
<div>* '''Description:''' ATPase, centromere-like function involved in forespore chromosome partitioning / negative regulation of sporulation initiation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''soj''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0JA ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || negative regulator of sporulation initiation<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || forespore chromosome partitioning /<br/> negative regulation of sporulation initiation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 4.903 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 759 bp, 253 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spo0J]]'', ''[[yyaB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16134&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:soj_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[DNA condensation/ segregation]]}},<br />
{{SubtiWiki category|[[sporulation/ other]]}},<br />
{{SubtiWiki category|[[membrane proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU40970<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10055]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' regulates [[DNA replication]] initiation by either inhibiting or activating the [[DNA replication]] initiator protein [[DnaA]] {{PubMed|21235642}}; regulation of ''Spo0A'' expression {{PubMed|10852876}}<br />
<br />
* '''Protein family:''' parA family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' <br />
** [[Spo0J]] inhibits [[Soj]] dimerization and concomitant DNA-binding activity by stimulating Soj ATPase activity {{PubMed|21235642}} <br />
<br />
* '''Interactions:'''<br />
** [[Spo0J]]-[[Soj]] {{PubMed|21235642}} <br />
<br />
<br />
* '''Localization:'''<br />
** polar/ septal at the cell membrane {{PubMed|20566861}} <br />
** polar localization depends on the proton motive force {{PubMed|20566861}}<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P37522 P37522]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU40970]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[soj]]-[[spo0J]]'' (according to [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html DBTBS])<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed> 20157337 </pubmed><br />
==Original publications==<br />
<pubmed>15659156,11532141,19450516,18854156,10619015,8866474,12492861,9701805,12950914,14651647, 19450516 20566861 21235642 10852876 14563866</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ParA&diff=140848
ParA
2011-04-01T14:24:39Z
<p>Heilers: /* Basic information/ Evolution */</p>
<hr />
<div>* '''Description:''' ATPase, centromere-like function involved in forespore chromosome partitioning / negative regulation of sporulation initiation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''soj''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0JA ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || negative regulator of sporulation initiation<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || forespore chromosome partitioning /<br/> negative regulation of sporulation initiation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 4.903 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 759 bp, 253 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spo0J]]'', ''[[yyaB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16134&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:soj_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[DNA condensation/ segregation]]}},<br />
{{SubtiWiki category|[[sporulation/ other]]}},<br />
{{SubtiWiki category|[[membrane proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU40970<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10055]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' regulates [[DNA replication]] initiation by either inhibiting or activating the [[DNA replication]] initiator protein [[DnaA]] {{PubMed|21235642}}; regulation of ''Spo0A'' expression {{PubMed|10852876}}<br />
<br />
* '''Protein family:''' parA family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' <br />
** [[Spo0J]] inhibits [[Soj]] dimerization and concomitant DNA-binding activity by stimulating Soj ATPase activity {{PubMed|21235642}} <br />
<br />
* '''Interactions:'''<br />
** [[Spo0J]]-[[Soj]] {{PubMed|21235642}} <br />
<br />
<br />
* '''Localization:'''<br />
** polar/ septal at the cell membrane {{PubMed|20566861}} <br />
** polar localization depends on the proton motive force {{PubMed|20566861}}<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P37522 P37522]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU40970]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[soj]]-[[spo0J]]'' (according to [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html DBTBS])<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed> 20157337 </pubmed><br />
==Original publications==<br />
<pubmed>15659156,11532141,19450516,18854156,10619015,8866474,12492861,9701805,12950914,14651647, 19450516 20566861 21235642 10852876</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ParA&diff=140847
ParA
2011-04-01T14:22:49Z
<p>Heilers: /* Original publications */</p>
<hr />
<div>* '''Description:''' ATPase, centromere-like function involved in forespore chromosome partitioning / negative regulation of sporulation initiation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''soj''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0JA ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || negative regulator of sporulation initiation<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || forespore chromosome partitioning /<br/> negative regulation of sporulation initiation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 4.903 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 759 bp, 253 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spo0J]]'', ''[[yyaB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB16134&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:soj_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[DNA condensation/ segregation]]}},<br />
{{SubtiWiki category|[[sporulation/ other]]}},<br />
{{SubtiWiki category|[[membrane proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU40970<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10055]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' regulates [[DNA replication]] initiation by either inhibiting or activating the [[DNA replication]] initiator protein [[DnaA]] {{PubMed|21235642}} <br />
<br />
* '''Protein family:''' parA family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' <br />
** [[Spo0J]] inhibits [[Soj]] dimerization and concomitant DNA-binding activity by stimulating Soj ATPase activity {{PubMed|21235642}} <br />
<br />
* '''Interactions:'''<br />
** [[Spo0J]]-[[Soj]] {{PubMed|21235642}} <br />
<br />
<br />
* '''Localization:'''<br />
** polar/ septal at the cell membrane {{PubMed|20566861}} <br />
** polar localization depends on the proton motive force {{PubMed|20566861}}<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P37522 P37522]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU40970]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[soj]]-[[spo0J]]'' (according to [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html DBTBS])<br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]<br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed> 20157337 </pubmed><br />
==Original publications==<br />
<pubmed>15659156,11532141,19450516,18854156,10619015,8866474,12492861,9701805,12950914,14651647, 19450516 20566861 21235642 10852876</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Spo0A&diff=140846
Spo0A
2011-04-01T14:21:28Z
<p>Heilers: /* Other original Publications */</p>
<hr />
<div>* '''Description:''' [[phosphorelay]] regulator, initiation of sporulation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''spo0A''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0C, spo0G, spoIIL, sof-1 ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[phosphorelay]] response regulator<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism],[http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress], <br/>[http://subtiwiki.uni-goettingen.de/pathways/tRNA_charging.html tRNA charging],[http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion] '''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.989 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 801 bp, 267 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqiG]]'', ''[[spoIVB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14353&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0A_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[phosphorelay]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[SigH regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[Spo0A regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24220<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0A.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10765]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' receives phosphorylation from [[Spo0B]], dephosphorylation by [[Spo0E]], direct phosphorylation by [[KinC]] upon potassium leakage {{PubMed|19114652}}<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' <br />
** the phosphorylation state affects DNA binding activity<br />
** interaction with [[MecA]] inhibits the transcriptional activity of [[Spo0A]]∼P {{PubMed|21435029}}<br />
<br />
* '''Interactions:''' <br />
** [[KinC]]-[[Spo0A]] {{PubMed|19114652}}<br />
** [[Spo0A]]-[[Spo0E]] {{PubMed|12067336}}<br />
** [[Spo0A]]-[[SigA]] {{PubMed|14976210}}<br />
** [[Spo0A]]-[[Spo0B]]<br />
** [[SinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
** [[MecA]]-[[Spo0A]] {{PubMed|21435029}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1QMP 1QMP] (with phosphorylated aspartate, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1FC3 1FC3] (trans-activation domain, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1LQ1 1LQ1] (complex with DNA) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06534 P06534]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24220]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''spo0A'' {{PubMed|11254139}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11254139,1569009}}, [[SigH]] {{PubMed|11254139,1569009}}<br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
** repressed by casamino acids {{PubMed|15060025}}<br />
** repressed by [[SinR]] overexpression {{PubMed|9685500}}<br />
** repressed by [[soj]] {{PubMed|10852876}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
* [[Tony Wilkinson]], York University, U.K. [http://www.york.ac.uk/depts/chem/staff/ajw.html homepage]<br />
* [[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]<br />
* [[Charles Moran]], Emory University, NC, USA [http://www.microbiology.emory.edu/moran_c.html homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>19995980 20030732 20157337 11286862 20833318 20955377 </pubmed><br />
==The [[Spo0A regulon]]==<br />
<pubmed>14651647,15687200, </pubmed><br />
==Other original Publications==<br />
'''Additonal publications:''' {{PubMed|21326214,21435029}} <br />
<pubmed>14679239, 1569009 20413551 20404177 19528067, 19581368 , 8730857,2106683,3157992, 11254139, 12067336, 10869437, 16385044,9287005, 8127878,9287022, 8231806, 1905258,16452424,2118505,8207022, 12176382, 9733708, 11069677,1391039,12730135, 2437099,8288522,16166384,9495766,2118512,1556084, 18296515,7768874, 3145384, 19114652 20689749 1537790,9658000, 8509330,14762002, 1846779, 2981817, 9477965,8600030, 18840696, 1391039, 14976210, 19207565 11679073 12270811 11112444 18978066 20154131 14712656 17157871 15060025 9685500 10852876</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Spo0A&diff=140845
Spo0A
2011-04-01T14:19:40Z
<p>Heilers: /* Expression and regulation */</p>
<hr />
<div>* '''Description:''' [[phosphorelay]] regulator, initiation of sporulation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''spo0A''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0C, spo0G, spoIIL, sof-1 ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[phosphorelay]] response regulator<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism],[http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress], <br/>[http://subtiwiki.uni-goettingen.de/pathways/tRNA_charging.html tRNA charging],[http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion] '''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.989 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 801 bp, 267 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqiG]]'', ''[[spoIVB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14353&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0A_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[phosphorelay]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[SigH regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[Spo0A regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24220<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0A.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10765]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' receives phosphorylation from [[Spo0B]], dephosphorylation by [[Spo0E]], direct phosphorylation by [[KinC]] upon potassium leakage {{PubMed|19114652}}<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' <br />
** the phosphorylation state affects DNA binding activity<br />
** interaction with [[MecA]] inhibits the transcriptional activity of [[Spo0A]]∼P {{PubMed|21435029}}<br />
<br />
* '''Interactions:''' <br />
** [[KinC]]-[[Spo0A]] {{PubMed|19114652}}<br />
** [[Spo0A]]-[[Spo0E]] {{PubMed|12067336}}<br />
** [[Spo0A]]-[[SigA]] {{PubMed|14976210}}<br />
** [[Spo0A]]-[[Spo0B]]<br />
** [[SinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
** [[MecA]]-[[Spo0A]] {{PubMed|21435029}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1QMP 1QMP] (with phosphorylated aspartate, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1FC3 1FC3] (trans-activation domain, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1LQ1 1LQ1] (complex with DNA) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06534 P06534]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24220]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''spo0A'' {{PubMed|11254139}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11254139,1569009}}, [[SigH]] {{PubMed|11254139,1569009}}<br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
** repressed by casamino acids {{PubMed|15060025}}<br />
** repressed by [[SinR]] overexpression {{PubMed|9685500}}<br />
** repressed by [[soj]] {{PubMed|10852876}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
* [[Tony Wilkinson]], York University, U.K. [http://www.york.ac.uk/depts/chem/staff/ajw.html homepage]<br />
* [[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]<br />
* [[Charles Moran]], Emory University, NC, USA [http://www.microbiology.emory.edu/moran_c.html homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>19995980 20030732 20157337 11286862 20833318 20955377 </pubmed><br />
==The [[Spo0A regulon]]==<br />
<pubmed>14651647,15687200, </pubmed><br />
==Other original Publications==<br />
'''Additonal publications:''' {{PubMed|21326214,21435029}} <br />
<pubmed>14679239, 1569009 20413551 20404177 19528067, 19581368 , 8730857,2106683,3157992, 11254139, 12067336, 10869437, 16385044,9287005, 8127878,9287022, 8231806, 1905258,16452424,2118505,8207022, 12176382, 9733708, 11069677,1391039,12730135, 2437099,8288522,16166384,9495766,2118512,1556084, 18296515,7768874, 3145384, 19114652 20689749 1537790,9658000, 8509330,14762002, 1846779, 2981817, 9477965,8600030, 18840696, 1391039, 14976210, 19207565 11679073 12270811 11112444 18978066 20154131 14712656 17157871 15060025 9685500</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Spo0A&diff=140844
Spo0A
2011-04-01T14:00:41Z
<p>Heilers: /* Other original Publications */</p>
<hr />
<div>* '''Description:''' [[phosphorelay]] regulator, initiation of sporulation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''spo0A''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0C, spo0G, spoIIL, sof-1 ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[phosphorelay]] response regulator<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism],[http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress], <br/>[http://subtiwiki.uni-goettingen.de/pathways/tRNA_charging.html tRNA charging],[http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion] '''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.989 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 801 bp, 267 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqiG]]'', ''[[spoIVB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14353&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0A_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[phosphorelay]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[SigH regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[Spo0A regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24220<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0A.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10765]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' receives phosphorylation from [[Spo0B]], dephosphorylation by [[Spo0E]], direct phosphorylation by [[KinC]] upon potassium leakage {{PubMed|19114652}}<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' <br />
** the phosphorylation state affects DNA binding activity<br />
** interaction with [[MecA]] inhibits the transcriptional activity of [[Spo0A]]∼P {{PubMed|21435029}}<br />
<br />
* '''Interactions:''' <br />
** [[KinC]]-[[Spo0A]] {{PubMed|19114652}}<br />
** [[Spo0A]]-[[Spo0E]] {{PubMed|12067336}}<br />
** [[Spo0A]]-[[SigA]] {{PubMed|14976210}}<br />
** [[Spo0A]]-[[Spo0B]]<br />
** [[SinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
** [[MecA]]-[[Spo0A]] {{PubMed|21435029}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1QMP 1QMP] (with phosphorylated aspartate, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1FC3 1FC3] (trans-activation domain, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1LQ1 1LQ1] (complex with DNA) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06534 P06534]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24220]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''spo0A'' {{PubMed|11254139}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11254139,1569009}}, [[SigH]] {{PubMed|11254139,1569009}}<br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
** repressed by casamino acids {{PubMed|15060025}}<br />
** repressed by [[SinR]] ''in vitro'' {{PubMed|9685500}} <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
* [[Tony Wilkinson]], York University, U.K. [http://www.york.ac.uk/depts/chem/staff/ajw.html homepage]<br />
* [[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]<br />
* [[Charles Moran]], Emory University, NC, USA [http://www.microbiology.emory.edu/moran_c.html homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>19995980 20030732 20157337 11286862 20833318 20955377 </pubmed><br />
==The [[Spo0A regulon]]==<br />
<pubmed>14651647,15687200, </pubmed><br />
==Other original Publications==<br />
'''Additonal publications:''' {{PubMed|21326214,21435029}} <br />
<pubmed>14679239, 1569009 20413551 20404177 19528067, 19581368 , 8730857,2106683,3157992, 11254139, 12067336, 10869437, 16385044,9287005, 8127878,9287022, 8231806, 1905258,16452424,2118505,8207022, 12176382, 9733708, 11069677,1391039,12730135, 2437099,8288522,16166384,9495766,2118512,1556084, 18296515,7768874, 3145384, 19114652 20689749 1537790,9658000, 8509330,14762002, 1846779, 2981817, 9477965,8600030, 18840696, 1391039, 14976210, 19207565 11679073 12270811 11112444 18978066 20154131 14712656 17157871 15060025 9685500</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Spo0A&diff=140843
Spo0A
2011-04-01T13:58:56Z
<p>Heilers: /* Expression and regulation */</p>
<hr />
<div>* '''Description:''' [[phosphorelay]] regulator, initiation of sporulation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''spo0A''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0C, spo0G, spoIIL, sof-1 ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[phosphorelay]] response regulator<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism],[http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress], <br/>[http://subtiwiki.uni-goettingen.de/pathways/tRNA_charging.html tRNA charging],[http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion] '''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.989 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 801 bp, 267 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqiG]]'', ''[[spoIVB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14353&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0A_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[phosphorelay]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[SigH regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[Spo0A regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24220<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0A.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10765]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' receives phosphorylation from [[Spo0B]], dephosphorylation by [[Spo0E]], direct phosphorylation by [[KinC]] upon potassium leakage {{PubMed|19114652}}<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' <br />
** the phosphorylation state affects DNA binding activity<br />
** interaction with [[MecA]] inhibits the transcriptional activity of [[Spo0A]]∼P {{PubMed|21435029}}<br />
<br />
* '''Interactions:''' <br />
** [[KinC]]-[[Spo0A]] {{PubMed|19114652}}<br />
** [[Spo0A]]-[[Spo0E]] {{PubMed|12067336}}<br />
** [[Spo0A]]-[[SigA]] {{PubMed|14976210}}<br />
** [[Spo0A]]-[[Spo0B]]<br />
** [[SinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
** [[MecA]]-[[Spo0A]] {{PubMed|21435029}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1QMP 1QMP] (with phosphorylated aspartate, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1FC3 1FC3] (trans-activation domain, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1LQ1 1LQ1] (complex with DNA) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06534 P06534]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24220]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''spo0A'' {{PubMed|11254139}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11254139,1569009}}, [[SigH]] {{PubMed|11254139,1569009}}<br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
** repressed by casamino acids {{PubMed|15060025}}<br />
** repressed by [[SinR]] ''in vitro'' {{PubMed|9685500}} <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
* [[Tony Wilkinson]], York University, U.K. [http://www.york.ac.uk/depts/chem/staff/ajw.html homepage]<br />
* [[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]<br />
* [[Charles Moran]], Emory University, NC, USA [http://www.microbiology.emory.edu/moran_c.html homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>19995980 20030732 20157337 11286862 20833318 20955377 </pubmed><br />
==The [[Spo0A regulon]]==<br />
<pubmed>14651647,15687200, </pubmed><br />
==Other original Publications==<br />
'''Additonal publications:''' {{PubMed|21326214,21435029}} <br />
<pubmed>14679239, 1569009 20413551 20404177 19528067, 19581368 , 8730857,2106683,3157992, 11254139, 12067336, 10869437, 16385044,9287005, 8127878,9287022, 8231806, 1905258,16452424,2118505,8207022, 12176382, 9733708, 11069677,1391039,12730135, 2437099,8288522,16166384,9495766,2118512,1556084, 18296515,7768874, 3145384, 19114652 20689749 1537790,9658000, 8509330,14762002, 1846779, 2981817, 9477965,8600030, 18840696, 1391039, 14976210, 19207565 11679073 12270811 11112444 18978066 20154131 14712656 17157871 15060025 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SinR&diff=140842
SinR
2011-04-01T13:54:10Z
<p>Heilers: /* Original publications */</p>
<hr />
<div>* '''Description:''' transcriptional regulator of post-exponential-phase responses genes <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''sinR''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sin, flaD ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator of post-exponential-phase responses genes<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 7.177 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinI]]'', ''[[tasA]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14392&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:sinR_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[transition state regulators]]}},<br />
{{SubtiWiki category|[[biofilm formation]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[AbrB regulon]]}},<br />
{{SubtiWiki regulon|[[ScoC regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[SinR regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24610<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10754]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' transcription repressor of biofilm genes, acts as co-repressor for [[SlrR]] {{PubMed|20351052}}<br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):''' [[SlrR]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' [[SinI]] and [[SlrA]] are antagonists to [[SinR]] {{PubMed|19788541}}, [[SlrR]] is also antagonist of [[SinR]] {{PubMed|20351052}}<br />
<br />
* '''Interactions:''' [[SlrA]]-[[SinR]] {{PubMed|19788541}}, [[SlrR]]-[[SinR]] {{PubMed|20351052}}, [[SinR]]-[[ScoC]], [[SinR]]-[[SinI]]<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06533 P06533]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24610]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}<br />
** ''[[sinR]]'' {{PubMed|3125149}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
** ''[[sinI]]'': [[SigA]] {{PubMed|3125149}}<br />
** ''[[sinR]]'': [[SigA]] {{PubMed|3125149}}<br />
<br />
* '''Regulation:''' <br />
** ''[[sinI]]'': repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]<br />
** ''[[sinI]]'': repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** ''[[sinI]]'': repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** ''[[sinI]]'': repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]<br />
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' TMB079 ''sinR::spec'', GP736 (tetR), available in [[Stülke]] lab <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab <br />
<br />
* '''FLAG-tag construct:''' GP960 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>20395361 20541494 </pubmed><br />
==Modelling of the [[SinI]]/[[SinR]] switch==<br />
<pubmed> 21095906 </pubmed><br />
==Original publications==<br />
'''Additonal publications:''' {{PubMed|21326214}} <br />
<pubmed>8955328,15661000,8878039,16923912,15104138,16430695,16430696,18047568,18430133,11751836,1906467,11751836,7635837,11751836, 19201793, 10547280, 15104138, 9799632 19788541 19898538 3125149 8932324 20351052 20923420 8422983 9685500 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YqfG&diff=140415
YqfG
2011-03-04T08:43:20Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' required for rRNA maturation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yqfG''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || rRNA maturation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.193 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 471 bp, 157 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dgkA]]'', ''[[yqfF]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14461&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|-<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yqfG_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[translation]]}},<br />
{{SubtiWiki category|[[membrane proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU25320<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11656]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' UPF0054 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TVI 1TVI] orthologue from ''T. maritima'' (38% identity) {{PubMed|15965736}} <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P46347 P46347]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU25320]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
This protein family is highly conserved in bacteria. In ''E. coli'', its orthologe [http://ecoliwiki.net/colipedia/index.php/ybeY YbeY] is involved in maturation of rRNA. {{PubMed|20807199}}<br />
In S. meliloti, the protein affects sRNA regulation in a similar way as Hfq {{PubMed|21325267}}<br />
<br />
=References=<br />
<pubmed> 20807199, 15965736 21325267</pubmed><br />
<br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YqfG&diff=140414
YqfG
2011-03-04T08:42:09Z
<p>Heilers: /* Your additional remarks */</p>
<hr />
<div>* '''Description:''' required for rRNA maturation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yqfG''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || rRNA maturation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.193 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 471 bp, 157 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dgkA]]'', ''[[yqfF]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14461&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|-<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yqfG_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[translation]]}},<br />
{{SubtiWiki category|[[membrane proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU25320<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11656]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' UPF0054 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TVI 1TVI] orthologue from ''T. maritima'' (38% identity) {{PubMed|15965736}} <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P46347 P46347]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU25320]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
This protein family is highly conserved in bacteria. In ''E. coli'', its orthologe [http://ecoliwiki.net/colipedia/index.php/ybeY YbeY] is involved in maturation of rRNA. {{PubMed|20807199}}<br />
In S. meliloti, the protein affects sRNA regulation in a similar way as Hfq {{PubMed|21325267}}<br />
<br />
=References=<br />
<pubmed> 20807199, 15965736</pubmed><br />
<br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SinR&diff=140041
SinR
2011-02-18T09:28:01Z
<p>Heilers: /* Original publications */</p>
<hr />
<div>* '''Description:''' transcriptional regulator of post-exponential-phase responses genes <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''sinR''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sin, flaD ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator of post-exponential-phase responses genes<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 7.177 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinI]]'', ''[[tasA]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14392&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:sinR_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[transition state regulators]]}},<br />
{{SubtiWiki category|[[biofilm formation]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[AbrB regulon]]}},<br />
{{SubtiWiki regulon|[[ScoC regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[SinR regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24610<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10754]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' transcription repressor of biofilm genes, acts as co-repressor for [[SlrR]] {{PubMed|20351052}}<br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):''' [[SlrR]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' [[SinI]] and [[SlrA]] are antagonists to [[SinR]] {{PubMed|19788541}}, [[SlrR]] is also antagonist of [[SinR]] {{PubMed|20351052}}<br />
<br />
* '''Interactions:''' [[SlrA]]-[[SinR]] {{PubMed|19788541}}, [[SlrR]]-[[SinR]] {{PubMed|20351052}}, [[SinR]]-[[ScoC]], [[SinR]]-[[SinI]]<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06533 P06533]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24610]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}<br />
** ''[[sinR]]'' {{PubMed|3125149}}<br />
<br />
* '''[[Sigma factor]]:''' <br />
** ''[[sinI]]'': [[SigA]] {{PubMed|3125149}}<br />
** ''[[sinR]]'': [[SigA]] {{PubMed|3125149}}<br />
<br />
* '''Regulation:''' <br />
** ''[[sinI]]'': repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]<br />
** ''[[sinI]]'': repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** ''[[sinI]]'': repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** ''[[sinI]]'': repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]<br />
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' TMB079 ''sinR::spec'', GP736 (tetR), available in [[Stülke]] lab <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab <br />
<br />
* '''FLAG-tag construct:''' GP960 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>20395361 20541494 </pubmed><br />
==Modelling of the [[SinI]]/[[SinR]] switch==<br />
<pubmed> 21095906 </pubmed><br />
==Original publications==<br />
<pubmed>8955328,15661000,8878039,16923912,15104138,16430695,16430696,18047568,18430133,11751836,1906467,11751836,7635837,11751836, 19201793, 10547280, 15104138, 9799632 19788541 19898538 3125149 8932324 20351052 20923420 8422983 21326214 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SinI&diff=140040
SinI
2011-02-18T09:25:39Z
<p>Heilers: /* Original publications */</p>
<hr />
<div>* '''Description:''' antagonist of [[SinR]], drives [[SlrR]] from the [[SlrR]](LOW) to the [[SlrR]](HIGH) state <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''sinI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || antagonist of [[SinR]]<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 6 kDa, 6.333 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 171 bp, 57 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqhG]]'', ''[[sinR]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14391&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:sinI_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[transition state regulators]]}},<br />
{{SubtiWiki category|[[biofilm formation]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[AbrB regulon]]}},<br />
{{SubtiWiki regulon|[[ScoC regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24600<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10753]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):''' [[SlrA]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' [[SinR]]-[[SinI]] {{PubMed|9799632}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P23308 P23308]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24600]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' [[sinI]]-[[sinR]] {{PubMed|3125149}}, [[sinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|3125149}}<br />
<br />
* '''Regulation:''' <br />
** activated under conditions that trigger sporulation by ([[Spo0A]]) interaction [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed],{{PubMed|21326214}} <br />
** repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription activation, in a portion of cells [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]<br />
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
** GP959 (spc), available in [[Stülke]] lab<br />
** DS91 (spc) NCIB3610 derivate, available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed> 20541494 </pubmed><br />
==Modelling of the [[SinI]]/[[SinR]] switch==<br />
<pubmed> 21095906 </pubmed><br />
==Original publications==<br />
<pubmed>3125149 15661000,18047568,,11751836,1906467,11751836,7635837,11751836, 10547280, 15104138, 9799632 20923420 8422983 21326214</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SinI&diff=140039
SinI
2011-02-18T09:24:09Z
<p>Heilers: /* Expression and regulation */</p>
<hr />
<div>* '''Description:''' antagonist of [[SinR]], drives [[SlrR]] from the [[SlrR]](LOW) to the [[SlrR]](HIGH) state <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''sinI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || antagonist of [[SinR]]<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 6 kDa, 6.333 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 171 bp, 57 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqhG]]'', ''[[sinR]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14391&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:sinI_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[transition state regulators]]}},<br />
{{SubtiWiki category|[[biofilm formation]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[AbrB regulon]]}},<br />
{{SubtiWiki regulon|[[ScoC regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24600<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10753]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):''' [[SlrA]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' [[SinR]]-[[SinI]] {{PubMed|9799632}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P23308 P23308]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24600]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' [[sinI]]-[[sinR]] {{PubMed|3125149}}, [[sinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|3125149}}<br />
<br />
* '''Regulation:''' <br />
** activated under conditions that trigger sporulation by ([[Spo0A]]) interaction [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed],{{PubMed|21326214}} <br />
** repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription activation, in a portion of cells [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]<br />
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
** GP959 (spc), available in [[Stülke]] lab<br />
** DS91 (spc) NCIB3610 derivate, available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed> 20541494 </pubmed><br />
==Modelling of the [[SinI]]/[[SinR]] switch==<br />
<pubmed> 21095906 </pubmed><br />
==Original publications==<br />
<pubmed>3125149 15661000,18047568,,11751836,1906467,11751836,7635837,11751836, 10547280, 15104138, 9799632 20923420 8422983 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=SinI&diff=140038
SinI
2011-02-18T09:23:08Z
<p>Heilers: /* Expression and regulation */</p>
<hr />
<div>* '''Description:''' antagonist of [[SinR]], drives [[SlrR]] from the [[SlrR]](LOW) to the [[SlrR]](HIGH) state <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''sinI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || antagonist of [[SinR]]<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 6 kDa, 6.333 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 171 bp, 57 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqhG]]'', ''[[sinR]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14391&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:sinI_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[transition state regulators]]}},<br />
{{SubtiWiki category|[[biofilm formation]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[AbrB regulon]]}},<br />
{{SubtiWiki regulon|[[ScoC regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24600<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10753]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):''' [[SlrA]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' [[SinR]]-[[SinI]] {{PubMed|9799632}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P23308 P23308]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24600]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' [[sinI]]-[[sinR]] {{PubMed|3125149}}, [[sinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|3125149}}<br />
<br />
* '''Regulation:''' <br />
** activated under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed],{{PubMed|21326214}} <br />
** repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription activation, in a portion of cells [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]<br />
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]<br />
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]<br />
** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
** GP959 (spc), available in [[Stülke]] lab<br />
** DS91 (spc) NCIB3610 derivate, available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed> 20541494 </pubmed><br />
==Modelling of the [[SinI]]/[[SinR]] switch==<br />
<pubmed> 21095906 </pubmed><br />
==Original publications==<br />
<pubmed>3125149 15661000,18047568,,11751836,1906467,11751836,7635837,11751836, 10547280, 15104138, 9799632 20923420 8422983 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Spo0A&diff=140037
Spo0A
2011-02-18T09:17:48Z
<p>Heilers: /* Extended information on the protein */</p>
<hr />
<div>* '''Description:''' [[phosphorelay]] regulator, initiation of sporulation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''spo0A''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0C, spo0G, spoIIL, sof-1 ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[phosphorelay]] response regulator<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism],[http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress], <br/>[http://subtiwiki.uni-goettingen.de/pathways/tRNA_charging.html tRNA charging],[http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion] '''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.989 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 801 bp, 267 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqiG]]'', ''[[spoIVB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14353&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0A_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[phosphorelay]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[SigH regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[Spo0A regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24220<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0A.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10765]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' receives phosphorylation from [[Spo0B]], dephosphorylation by [[Spo0E]], direct phosphorylation by [[KinC]] upon potassium leakage {{PubMed|19114652}}<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' the phosphorylation state affects DNA binding activity<br />
<br />
* '''Interactions:''' [[KinC]]-[[Spo0A]] {{PubMed|19114652}}, [[Spo0A]]-[[Spo0E]] {{PubMed|12067336}}, [[Spo0A]]-[[SigA]] {{PubMed|14976210}}, [[Spo0A]]-[[Spo0B]], [[SinI]]-[[Spo0A]] {{PubMed|21326214}}<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1QMP 1QMP] (with phosphorylated aspartate, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1FC3 1FC3] (trans-activation domain, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1LQ1 1LQ1] (complex with DNA) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06534 P06534]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24220]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''spo0A'' {{PubMed|11254139}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11254139,1569009}}, [[SigH]] {{PubMed|11254139,1569009}}<br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
** repressed by casamino acids {{PubMed|15060025}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
* [[Tony Wilkinson]], York University, U.K. [http://www.york.ac.uk/depts/chem/staff/ajw.html homepage]<br />
* [[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]<br />
* [[Charles Moran]], Emory University, NC, USA [http://www.microbiology.emory.edu/moran_c.html homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>19995980 20030732 20157337 11286862 20833318 20955377 </pubmed><br />
==The [[Spo0A regulon]]==<br />
<pubmed>14651647,15687200, </pubmed><br />
==Other original Publications==<br />
<pubmed>14679239, 1569009 20413551 20404177 19528067, 19581368 , 8730857,2106683,3157992, 11254139, 12067336, 10869437, 16385044,9287005, 8127878,9287022, 8231806, 1905258,16452424,2118505,8207022, 12176382, 9733708, 11069677,1391039,12730135, 2437099,8288522,16166384,9495766,2118512,1556084, 18296515,7768874, 3145384, 19114652 20689749 1537790,9658000, 8509330,14762002, 1846779, 2981817, 9477965,8600030, 18840696, 1391039, 14976210, 19207565 11679073 12270811 11112444 18978066 20154131 14712656 17157871 15060025 21326214</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Spo0A&diff=140036
Spo0A
2011-02-18T09:14:22Z
<p>Heilers: /* Other original Publications */</p>
<hr />
<div>* '''Description:''' [[phosphorelay]] regulator, initiation of sporulation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''spo0A''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0C, spo0G, spoIIL, sof-1 ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || [[phosphorelay]] response regulator<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)], [http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate], <br/>[http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism],[http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Sugar catabolism], [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress], <br/>[http://subtiwiki.uni-goettingen.de/pathways/tRNA_charging.html tRNA charging],[http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion] '''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.989 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 801 bp, 267 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqiG]]'', ''[[spoIVB]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14353&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:spo0A_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[transcription factors and their control]]}},<br />
{{SubtiWiki category|[[phosphorelay]]}},<br />
{{SubtiWiki category|[[phosphoproteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[SigH regulon]]}},<br />
{{SubtiWiki regulon|[[Spo0A regulon]]}}<br />
<br />
=The [[Spo0A regulon]]=<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU24220<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0A.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10765]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' receives phosphorylation from [[Spo0B]], dephosphorylation by [[Spo0E]], direct phosphorylation by [[KinC]] upon potassium leakage {{PubMed|19114652}}<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' the phosphorylation state affects DNA binding activity<br />
<br />
* '''Interactions:''' [[KinC]]-[[Spo0A]] {{PubMed|19114652}}, [[Spo0A]]-[[Spo0E]] {{PubMed|12067336}}, [[Spo0A]]-[[SigA]] {{PubMed|14976210}}, [[Spo0A]]-[[Spo0B]]<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1QMP 1QMP] (with phosphorylated aspartate, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1FC3 1FC3] (trans-activation domain, ''Geobacillus stearothermophilus''), [http://www.rcsb.org/pdb/explore.do?structureId=1LQ1 1LQ1] (complex with DNA) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06534 P06534]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24220]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''spo0A'' {{PubMed|11254139}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|11254139,1569009}}, [[SigH]] {{PubMed|11254139,1569009}}<br />
<br />
* '''Regulation:''' <br />
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
** repressed by casamino acids {{PubMed|15060025}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1391039 PubMed]<br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
* [[Tony Wilkinson]], York University, U.K. [http://www.york.ac.uk/depts/chem/staff/ajw.html homepage]<br />
* [[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]<br />
* [[Charles Moran]], Emory University, NC, USA [http://www.microbiology.emory.edu/moran_c.html homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>19995980 20030732 20157337 11286862 20833318 20955377 </pubmed><br />
==The [[Spo0A regulon]]==<br />
<pubmed>14651647,15687200, </pubmed><br />
==Other original Publications==<br />
<pubmed>14679239, 1569009 20413551 20404177 19528067, 19581368 , 8730857,2106683,3157992, 11254139, 12067336, 10869437, 16385044,9287005, 8127878,9287022, 8231806, 1905258,16452424,2118505,8207022, 12176382, 9733708, 11069677,1391039,12730135, 2437099,8288522,16166384,9495766,2118512,1556084, 18296515,7768874, 3145384, 19114652 20689749 1537790,9658000, 8509330,14762002, 1846779, 2981817, 9477965,8600030, 18840696, 1391039, 14976210, 19207565 11679073 12270811 11112444 18978066 20154131 14712656 17157871 15060025 21326214</pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ABC_transporters&diff=139916
ABC transporters
2011-02-07T09:46:52Z
<p>Heilers: /* Relevant publications */</p>
<hr />
<div>{{CategoryTree<br />
|Parents=<br />
* 1. [[Cellular processes]]<br />
** 1.2. [[Transporters]]<br />
|Neighbours=<br />
* 1.2.1. [[ABC transporters]]<br />
* 1.2.2. [[Phosphotransferase systems]]<br />
* 1.2.3. [[Transporters/ other]]<br />
|Related=<br />
[[transport proteins]]<br />
|}}<br />
<br />
__TOC__<br />
<br><br />
=Importers=<br />
==Uptake of carbon sources==<br />
* [[YurJ]], [[YurM]], [[YurN]], [[YurO]]: uptake of aminosugars<br />
* [[AraN]], [[AraP]], [[AraQ]]: uptake of arabinose<br />
* [[CycB]], [[YvfL]], [[YvfM]]: uptake of cyclodextrin/maltodextrin (probably)<br />
* [[MdxE]], [[MdxF]], [[MdxG]]: uptake of maltodextrin<br />
* [[AmyC]], [[AmyD]], [[MsmE]]: uptake of melibiose (probably)<br />
* [[RbsA]], [[RbsB]], [[RbsC]], [[RbsD]]: uptake of ribose<br />
* ([[YtrB]]-[[YtrE]])-([[YtrC]]-[[YtrD]])-[[YtrF]]: uptake of acetoin<br />
<br />
===ATPase subunit of multiple sugar transport systems===<br />
* [[MsmX]]<br />
<br />
==Uptake of amino acids==<br />
* [[ArtP]], [[ArtQ]], [[ArtR]]: uptake of arginine<br />
* [[TcyJ]], [[TcyK]], [[TcyL]], [[TcyM]], [[TcyN]]: uptake of cystine<br />
* [[TcyA]], [[TcyB]], [[TcyC]]: uptake of cystine<br />
* [[GlnH]], [[GlnM]], [[GlnP]], [[GlnQ]]: uptake of glutamine<br />
* [[MetN]], [[MetP]], [[MetQ]]: uptake of methionine<br />
<br />
==Uptake of peptides==<br />
* [[AppA]], [[AppB]], [[AppC]], [[AppD]], [[AppF]]: uptake of oligopeptides<br />
* [[DppB]], [[DppC]], [[DppD]], [[DppE]], [[YkfD]]: uptake of dipeptides<br />
* [[OppA]], [[OppB]], [[OppC]], [[OppD]], [[OppF]]: uptake of oligopeptides<br />
<br />
==Uptake of compatible solutes for osmoprotection==<br />
* [[OpuAA]]-[[OpuAB]]-[[OpuAC]]: [[ABC transporter]] for glycine betaine<br />
* [[OpuBA]]-[[OpuBB]]-[[OpuBC]]-[[OpuBD]]: [[ABC transporter]] for choline<br />
* [[OpuCA]]-[[OpuCB]]-[[OpuCC]]-[[OpuCD]]: [[ABC transporter]] for glycine betaine/ carnitine/ choline<br />
<br />
==Uptake of iron/ siderophores==<br />
* [[YusV]]-[[FeuB]]-[[FeuC]]-[[FeuA]]: uptake of the siderophores enterobactin and bacillibactin <br />
* [[FhuC]]-[[FhuB]]-[[FhuG]]-[[FhuD]]-[[YxeB]]: uptake of ferrichrome und ferrioxamine<br />
* [[YclN]]-[[YclO]]-[[YclP]]-[[YclQ]]: uptake of petrobactin<br />
* [[YusV]]-[[YfiZ]]-[[YfhA]]-[[YfiY]]: uptake of the siderophores schizokinen and arthrobactin <br />
* [[YfmF]]-[[YfmD]]-[[YfmE]]-[[YfmC]]-[[YhfQ]]: uptake of iron/citrate<br />
<br />
==Uptake of ions==<br />
* [[MntB]]-[[MntA]]-[[MntC]]-[[MntD]]: uptake of manganese<br />
* [[PstBA]]-[[PstBB]]-[[PstS]]-[[PstC]]-[[PstA]]: uptake of phosphate<br />
* [[SsuA]]-[[SsuB]]-[[SsuC]]: uptake of aliphatic sulfonate<br />
* [[YcdI]]-[[YceA]]-[[YcdH]]: uptake of zinc<br />
* [[YvgM]]-[[YvgL]]: uptake of molybdenum (probably)<br />
<br />
==Uptake of cofactors==<br />
* [[ThiW]]-([[ThiV]]-[[ThiX]])-[[ThiU]]: uptake of thiamine<br />
<br />
==ABC transporters of unknown function==<br />
* [[LplA]]-[[LplB]]-[[LplC]]<br />
* [[YckA]]-[[YckB]]<br />
* [[YesO]]-[[YesP]]-[[YesQ]]<br />
* [[YhjP]]<br />
* [[YjkB]]-[[YjkA]]<br />
* [[YlmA]]<br />
* [[YtcP]]-[[YtcQ]]-[[YteP]]<br />
* [[YtlC]]-[[YtlD]]-[[YtlA]]<br />
* [[YufO]]-[[YufP]]-[[YufQ]]<br />
* [[YvrA]]-[[YvrB]]-[[YvrC]]<br />
* [[YxeM]]-[[YxeN]]-[[YxeO]]<br />
<br />
=Exporters=<br />
==Efflux of antibiotics==<br />
* [[VmlR]]: efflux of virginiamycin M and lincomycin<br />
* [[BmrA]]: efflux of multiple antibiotics<br />
* [[YheH]]-[[YheI]]: efflux of multiple antibiotics<br />
<br />
==Export of antibiotic substances==<br />
* [[AlbC]]-[[AlbD]]<br />
* [[SunT]]<br />
<br />
==Export of toxic peptides==<br />
* [[SkfE]]-[[SkfF]]<br />
* [[YknY]]-[[YknZ]]<br />
* [[BceA]]-[[BceB]]: export of bacitracin, plectasin, mersacidin and actagardine<br />
* [[YxdL]]-[[YxdM]]<br />
* [[PsdA]]-[[PsdB]]: export of lipid II-binding lantibiotics, such as nisin and gallidermin<br />
<br />
==Export of cell wall components==<br />
* [[TagG]]-[[TagH]]: export of teichoic acid <br />
<br />
==Export of ions==<br />
* [[NatA]]-[[NatB]]: export of Na(+)<br />
<br />
==Exporters of unknown function==<br />
* ([[YbxA]]-[[YbaE]])-[[YbaF]]<br />
* [[YcbN]]<br />
* [[YclH]]-[[YclI]]<br />
* [[YdbJ]]-[[YdbK]]<br />
* [[YdiF]]<br />
* [[YfiB]]-[[YfiC]]<br />
* [[YfiL]]-[[YfiM]]-[[YfiN]]<br />
* [[YfmM]]<br />
* [[YfmR]]<br />
* [[YgaD]]<br />
* [[YhaQ]]-[[YhaP]]<br />
* [[YhcG]]-[[YhcE]]<br />
* [[YhcH]]-[[YhcI]]<br />
* [[YknU]]-[[YknV]]<br />
* [[YkpA]]<br />
* [[YthP]]-[[YthQ]]<br />
* [[YvfR]]-[[YvfS]] <br />
* [[YvrO]]-[[YvrN]]<br />
* [[YwjA]]<br />
* [[YxlF]]-[[YxlG]]<br />
* [[YybJ]]-([[YybK]]-[[YybL]])<br />
<br />
=Regulatory ABC transporters=<br />
* [[CydC]]-[[CydD]]: required for expression of cytochrome bd <br />
* [[EcsA]]-[[EcsB]]: regulation of the secretion apparatus and of intra-membrane proteolysis<br />
* [[FtsE]]-[[FtsX]]: activation of [[Spo0A]] and initiation of sporulation <br />
* [[YheH]]-[[YheI]]: involved in the signalling pathway to activate [[KinA]] at the onset of sporulation <br />
* [[SufC]]: required for the synthesis of Fe-S clusters <br />
* [[YydI]]-([[YydJ]]-[[YydH]]): control of [[LiaR]]-[[LiaS]] activity<br />
<br />
=Relevant publications=<br />
<pubmed> 10092453 1282354 18535149 20497229 21283517</pubmed></div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=A-box&diff=139915
A-box
2011-02-07T09:39:50Z
<p>Heilers: /* References */</p>
<hr />
<div>'''The A-box is a [[riboswitch ]] that mediates adenine-dependent induction of ''[[pbuE]]'' gene expression'''<br />
<br />
<br />
==References==<br />
<pubmed> 12787499 ,18072940 19603494 14718920 16931335 16201765 20022916 21283784 </pubmed></div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ClpP&diff=139664
ClpP
2011-01-21T13:49:14Z
<p>Heilers: /* Original Publications */</p>
<hr />
<div>* '''Description:''' ATP-dependent Clp protease proteolytic subunit (class III heat-shock protein) <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''clpP''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvdN ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-dependent Clp protease proteolytic subunit<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || protein degradation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 5.008 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 591 bp, 197 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnQ-Arg]]'', ''[[pgcM]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15459&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:clpP_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[proteolysis]]}},<br />
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},<br />
{{SubtiWiki category|[[heat shock proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CtsR regulon]]}},<br />
{{SubtiWiki regulon|[[SigB regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34540<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/clpP.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG19016]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Hydrolysis of proteins to small peptides in the presence of ATP and magnesium (according to Swiss-Prot) endopeptidase/proteolysis<br />
<br />
* '''Protein family:''' peptidase S14 family (according to Swiss-Prot) ClpP (IPR001907) [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR001907 InterPro], (PF00574) [http://pfam.sanger.ac.uk/family?acc=PF00574 PFAM]<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Targets of [[ClpC]]-[[ClpP]]-dependent protein degradation ===<br />
* [[DegU]]-P {{PubMed|20070525}}<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' <br />
** [[ClpE]]-[[ClpP]], [[ClpC]]-[[ClpP]], [[ClpX]]-[[ClpP]]<br />
** [[CtsR]]-[[ClpP]]/[[ClpC]] (degradation of [[CtsR]]) {{PubMed|11179229,16163393,17380125}} <br />
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of non-phosphorylated McsB) {{PubMed|20852588}}<br />
<br />
* '''Localization:''' cytoplasmic polar clusters, excluded from the nucleoid, induced clustering upon heat shock, colocalization with [[ClpX]], [[ClpC]] and [[ClpE]] {{PubMed|18786145,18689473}} <br />
<br />
[[File:ClpP.jpg ]]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.pdb.org/pdb/search/structidSearch.do?structureId=3KTG 3KTG] {{PubMed|20305655}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P80244 P80244]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34540]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/3.4.21.92 3.4.21.92]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''clpP'' {{PubMed|9643546}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|9643546}}, [[SigB]] {{PubMed|9643546,11544224}} <br />
<br />
* '''Regulation:''' <br />
** induced by stress ([[SigB]]) {{PubMed|9643546,11544224}} <br />
** induced by heat ([[CtsR]]) {{PubMed|9987115}} <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CtsR]]: transcription repression {{PubMed|9987115,11179229,16163393,17380125}} <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
** ''clpP::spec'' and ''clpP::cat'', available in the [[Leendert Hamoen]] lab<br />
** GP551 (spc), available in the [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' C-terminal GFP fusions (both single copy and as 2th copy in ''amyE'' locus, also as CFP and YFP variants) available in the [[Leendert Hamoen]] lab<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[Leendert Hamoen]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
==Reviews==<br />
{{PubMed|19609260,19781636}}<br />
==Original Publications==<br />
<pubmed>9643546,10809708,11807061,9987115,14679237,18689476,15317791,17586624,11684022,12923101,17560370, 16899079,19226326 , 20070525,9987115,11544224 14763982 9643546, 19767395 11112444 9535081 18689473 20305655 20852588 </pubmed><br />
Additional publication: {{PubMed|17380125,12598648,9890793,20049702,20049702}}<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ClpP&diff=139663
ClpP
2011-01-21T13:48:41Z
<p>Heilers: Undo revision 139660 by Heilers (talk)</p>
<hr />
<div>* '''Description:''' ATP-dependent Clp protease proteolytic subunit (class III heat-shock protein) <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''clpP''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvdN ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-dependent Clp protease proteolytic subunit<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || protein degradation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 5.008 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 591 bp, 197 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnQ-Arg]]'', ''[[pgcM]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15459&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:clpP_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[proteolysis]]}},<br />
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},<br />
{{SubtiWiki category|[[heat shock proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CtsR regulon]]}},<br />
{{SubtiWiki regulon|[[SigB regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34540<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/clpP.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG19016]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Hydrolysis of proteins to small peptides in the presence of ATP and magnesium (according to Swiss-Prot) endopeptidase/proteolysis<br />
<br />
* '''Protein family:''' peptidase S14 family (according to Swiss-Prot) ClpP (IPR001907) [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR001907 InterPro], (PF00574) [http://pfam.sanger.ac.uk/family?acc=PF00574 PFAM]<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Targets of [[ClpC]]-[[ClpP]]-dependent protein degradation ===<br />
* [[DegU]]-P {{PubMed|20070525}}<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' <br />
** [[ClpE]]-[[ClpP]], [[ClpC]]-[[ClpP]], [[ClpX]]-[[ClpP]]<br />
** [[CtsR]]-[[ClpP]]/[[ClpC]] (degradation of [[CtsR]]) {{PubMed|11179229,16163393,17380125}} <br />
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of non-phosphorylated McsB) {{PubMed|20852588}}<br />
<br />
* '''Localization:''' cytoplasmic polar clusters, excluded from the nucleoid, induced clustering upon heat shock, colocalization with [[ClpX]], [[ClpC]] and [[ClpE]] {{PubMed|18786145,18689473}} <br />
<br />
[[File:ClpP.jpg ]]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.pdb.org/pdb/search/structidSearch.do?structureId=3KTG 3KTG] {{PubMed|20305655}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P80244 P80244]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34540]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/3.4.21.92 3.4.21.92]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''clpP'' {{PubMed|9643546}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|9643546}}, [[SigB]] {{PubMed|9643546,11544224}} <br />
<br />
* '''Regulation:''' <br />
** induced by stress ([[SigB]]) {{PubMed|9643546,11544224}} <br />
** induced by heat ([[CtsR]]) {{PubMed|9987115}} <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CtsR]]: transcription repression {{PubMed|9987115,11179229,16163393,17380125}} <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
** ''clpP::spec'' and ''clpP::cat'', available in the [[Leendert Hamoen]] lab<br />
** GP551 (spc), available in the [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' C-terminal GFP fusions (both single copy and as 2th copy in ''amyE'' locus, also as CFP and YFP variants) available in the [[Leendert Hamoen]] lab<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[Leendert Hamoen]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
==Reviews==<br />
{{PubMed|19609260,19781636}}<br />
==Original Publications==<br />
<pubmed>9643546,10809708,11807061,9987115,14679237,18689476,15317791,17586624,11684022,12923101,17560370, 16899079,19226326 , 20070525,9987115,11544224 14763982 9643546, 19767395 11112444 9535081 18689473 20305655 20852588 </pubmed><br />
Additional publication: {{PubMed|17380125,12598648,9890793,20049702}}<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ClpP&diff=139662
ClpP
2011-01-21T13:48:05Z
<p>Heilers: Undo revision 139661 by Heilers (talk)</p>
<hr />
<div>* '''Description:''' ATP-dependent Clp protease proteolytic subunit (class III heat-shock protein) <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''clpP''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvdN ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-dependent Clp protease proteolytic subunit<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || protein degradation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 5.008 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 591 bp, 197 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnQ-Arg]]'', ''[[pgcM]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15459&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:clpP_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[proteolysis]]}},<br />
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},<br />
{{SubtiWiki category|[[heat shock proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CtsR regulon]]}},<br />
{{SubtiWiki regulon|[[SigB regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34540<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/clpP.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG19016]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Hydrolysis of proteins to small peptides in the presence of ATP and magnesium (according to Swiss-Prot) endopeptidase/proteolysis<br />
<br />
* '''Protein family:''' peptidase S14 family (according to Swiss-Prot) ClpP (IPR001907) [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR001907 InterPro], (PF00574) [http://pfam.sanger.ac.uk/family?acc=PF00574 PFAM]<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Targets of [[ClpC]]-[[ClpP]]-dependent protein degradation ===<br />
* [[DegU]]-P {{PubMed|20070525}}<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' <br />
** [[ClpE]]-[[ClpP]], [[ClpC]]-[[ClpP]], [[ClpX]]-[[ClpP]]<br />
** [[CtsR]]-[[ClpP]]/[[ClpC]] (degradation of [[CtsR]]) {{PubMed|11179229,16163393,17380125}} <br />
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of non-phosphorylated McsB) {{PubMed|20852588}}<br />
<br />
* '''Localization:''' cytoplasmic polar clusters, excluded from the nucleoid, induced clustering upon heat shock, colocalization with [[ClpX]], [[ClpC]] and [[ClpE]] {{PubMed|18786145,18689473}} <br />
<br />
[[File:ClpP.jpg ]]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.pdb.org/pdb/search/structidSearch.do?structureId=3KTG 3KTG] {{PubMed|20305655}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P80244 P80244]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34540]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/3.4.21.92 3.4.21.92]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''clpP'' {{PubMed|9643546}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|9643546}}, [[SigB]] {{PubMed|9643546,11544224}} <br />
<br />
* '''Regulation:''' <br />
** induced by stress ([[SigB]]) {{PubMed|9643546,11544224}} <br />
** induced by heat ([[CtsR]]) {{PubMed|9987115}} <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CtsR]]: transcription repression {{PubMed|9987115,11179229,16163393,17380125}} <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
** ''clpP::spec'' and ''clpP::cat'', available in the [[Leendert Hamoen]] lab<br />
** GP551 (spc), available in the [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' C-terminal GFP fusions (both single copy and as 2th copy in ''amyE'' locus, also as CFP and YFP variants) available in the [[Leendert Hamoen]] lab<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[Leendert Hamoen]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
==Reviews==<br />
{{PubMed|19609260,19781636}}<br />
==Original Publications==<br />
<pubmed>9643546,10809708,11807061,9987115,14679237,18689476,15317791,17586624,11684022,12923101,17560370, 16899079,19226326 , 20070525,9987115,11544224 14763982 9643546, 19767395 11112444 9535081 18689473 20305655 20852588 20049702 </pubmed><br />
Additional publication: {{PubMed|17380125,12598648,9890793,20049702}}<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ClpP&diff=139661
ClpP
2011-01-21T13:46:50Z
<p>Heilers: /* Original Publications */</p>
<hr />
<div>* '''Description:''' ATP-dependent Clp protease proteolytic subunit (class III heat-shock protein) <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''clpP''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvdN ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-dependent Clp protease proteolytic subunit<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || protein degradation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 5.008 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 591 bp, 197 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnQ-Arg]]'', ''[[pgcM]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15459&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:clpP_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[proteolysis]]}},<br />
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},<br />
{{SubtiWiki category|[[heat shock proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CtsR regulon]]}},<br />
{{SubtiWiki regulon|[[SigB regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34540<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/clpP.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG19016]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Hydrolysis of proteins to small peptides in the presence of ATP and magnesium (according to Swiss-Prot) endopeptidase/proteolysis<br />
<br />
* '''Protein family:''' peptidase S14 family (according to Swiss-Prot) ClpP (IPR001907) [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR001907 InterPro], (PF00574) [http://pfam.sanger.ac.uk/family?acc=PF00574 PFAM]<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Targets of [[ClpC]]-[[ClpP]]-dependent protein degradation ===<br />
* [[DegU]]-P {{PubMed|20070525}}<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' <br />
** [[ClpE]]-[[ClpP]], [[ClpC]]-[[ClpP]], [[ClpX]]-[[ClpP]]<br />
** [[CtsR]]-[[ClpP]]/[[ClpC]] (degradation of [[CtsR]]) {{PubMed|11179229,16163393,17380125}} <br />
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of non-phosphorylated McsB) {{PubMed|20852588}}<br />
<br />
* '''Localization:''' cytoplasmic polar clusters, excluded from the nucleoid, induced clustering upon heat shock, colocalization with [[ClpX]], [[ClpC]] and [[ClpE]] {{PubMed|18786145,18689473}} <br />
<br />
[[File:ClpP.jpg ]]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.pdb.org/pdb/search/structidSearch.do?structureId=3KTG 3KTG] {{PubMed|20305655}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P80244 P80244]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34540]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/3.4.21.92 3.4.21.92]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''clpP'' {{PubMed|9643546}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|9643546}}, [[SigB]] {{PubMed|9643546,11544224}} <br />
<br />
* '''Regulation:''' <br />
** induced by stress ([[SigB]]) {{PubMed|9643546,11544224}} <br />
** induced by heat ([[CtsR]]) {{PubMed|9987115}} <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CtsR]]: transcription repression {{PubMed|9987115,11179229,16163393,17380125}} <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
** ''clpP::spec'' and ''clpP::cat'', available in the [[Leendert Hamoen]] lab<br />
** GP551 (spc), available in the [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' C-terminal GFP fusions (both single copy and as 2th copy in ''amyE'' locus, also as CFP and YFP variants) available in the [[Leendert Hamoen]] lab<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[Leendert Hamoen]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
==Reviews==<br />
{{PubMed|19609260,19781636}}<br />
==Original Publications==<br />
<pubmed>9643546,10809708,11807061,9987115,14679237,18689476,15317791,17586624,11684022,12923101,17560370, 20049702, 16899079,19226326 , 20070525,9987115,11544224 14763982 9643546, 19767395 11112444 9535081 18689473 20305655 20852588 </pubmed><br />
Additional publication: {{PubMed|17380125,12598648,9890793,20049702}}<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=ClpP&diff=139660
ClpP
2011-01-21T13:44:53Z
<p>Heilers: /* Original Publications */</p>
<hr />
<div>* '''Description:''' ATP-dependent Clp protease proteolytic subunit (class III heat-shock protein) <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''clpP''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvdN ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-dependent Clp protease proteolytic subunit<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || protein degradation<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay], [http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 5.008 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 591 bp, 197 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnQ-Arg]]'', ''[[pgcM]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15459&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:clpP_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
= [[Categories]] containing this gene/protein =<br />
{{SubtiWiki category|[[proteolysis]]}},<br />
{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},<br />
{{SubtiWiki category|[[heat shock proteins]]}}<br />
<br />
= This gene is a member of the following [[regulons]] =<br />
{{SubtiWiki regulon|[[CtsR regulon]]}},<br />
{{SubtiWiki regulon|[[SigB regulon]]}}<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU34540<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/clpP.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG19016]<br />
<br />
=== Additional information===<br />
<br />
<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' Hydrolysis of proteins to small peptides in the presence of ATP and magnesium (according to Swiss-Prot) endopeptidase/proteolysis<br />
<br />
* '''Protein family:''' peptidase S14 family (according to Swiss-Prot) ClpP (IPR001907) [http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=IPR001907 InterPro], (PF00574) [http://pfam.sanger.ac.uk/family?acc=PF00574 PFAM]<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Targets of [[ClpC]]-[[ClpP]]-dependent protein degradation ===<br />
* [[DegU]]-P {{PubMed|20070525}}<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:''' <br />
** [[ClpE]]-[[ClpP]], [[ClpC]]-[[ClpP]], [[ClpX]]-[[ClpP]]<br />
** [[CtsR]]-[[ClpP]]/[[ClpC]] (degradation of [[CtsR]]) {{PubMed|11179229,16163393,17380125}} <br />
** [[McsB]]-[[ClpP]]/[[ClpC]] (rapid degradation of non-phosphorylated McsB) {{PubMed|20852588}}<br />
<br />
* '''Localization:''' cytoplasmic polar clusters, excluded from the nucleoid, induced clustering upon heat shock, colocalization with [[ClpX]], [[ClpC]] and [[ClpE]] {{PubMed|18786145,18689473}} <br />
<br />
[[File:ClpP.jpg ]]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.pdb.org/pdb/search/structidSearch.do?structureId=3KTG 3KTG] {{PubMed|20305655}}<br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P80244 P80244]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34540]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/3.4.21.92 3.4.21.92]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''clpP'' {{PubMed|9643546}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|9643546}}, [[SigB]] {{PubMed|9643546,11544224}} <br />
<br />
* '''Regulation:''' <br />
** induced by stress ([[SigB]]) {{PubMed|9643546,11544224}} <br />
** induced by heat ([[CtsR]]) {{PubMed|9987115}} <br />
<br />
* '''Regulatory mechanism:''' <br />
** [[CtsR]]: transcription repression {{PubMed|9987115,11179229,16163393,17380125}} <br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' <br />
** ''clpP::spec'' and ''clpP::cat'', available in the [[Leendert Hamoen]] lab<br />
** GP551 (spc), available in the [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' C-terminal GFP fusions (both single copy and as 2th copy in ''amyE'' locus, also as CFP and YFP variants) available in the [[Leendert Hamoen]] lab<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
[[Leendert Hamoen]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
==Reviews==<br />
{{PubMed|19609260,19781636}}<br />
==Original Publications==<br />
<pubmed>9643546,10809708,11807061,9987115,14679237,18689476,15317791,17586624,11684022,12923101,17560370, 16899079,19226326 , 20070525,9987115,11544224 14763982 9643546, 19767395 11112444 9535081 18689473 20305655 20852588 20049702 </pubmed><br />
Additional publication: {{PubMed|17380125,12598648,9890793,20049702}}<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YqfG&diff=128894
YqfG
2010-11-04T13:43:25Z
<p>Heilers: /* References */</p>
<hr />
<div>* '''Description:''' required for rRNA maturation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yqfG''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || rRNA maturation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.193 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 471 bp, 157 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dgkA]]'', ''[[yqfF]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14461&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|-<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yqfG_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU25320<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11656]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' UPF0054 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TVI 1TVI] orthologue from ''T. maritima'' (38% identity) {{PubMed|15965736}} <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P46347 P46347]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU25320]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
This protein family is highly conserved in bacteria. In ''E. coli'', its orthologe [http://ecoliwiki.net/colipedia/index.php/ybeY YbeY] is involved in maturation of rRNA. {{PubMed|20807199}}<br />
<br />
=References=<br />
<pubmed> 20807199, 15965736</pubmed><br />
<br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YqfG&diff=128893
YqfG
2010-11-04T13:42:11Z
<p>Heilers: /* Database entries */</p>
<hr />
<div>* '''Description:''' required for rRNA maturation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yqfG''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || rRNA maturation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.193 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 471 bp, 157 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dgkA]]'', ''[[yqfF]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14461&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|-<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yqfG_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU25320<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11656]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' UPF0054 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TVI 1TVI] orthologue from ''T. maritima'' (38% identity) {{PubMed|15965736}} <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P46347 P46347]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU25320]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
This protein family is highly conserved in bacteria. In ''E. coli'', its orthologe [http://ecoliwiki.net/colipedia/index.php/ybeY YbeY] is involved in maturation of rRNA. {{PubMed|20807199}}<br />
<br />
=References=<br />
<pubmed> 20807199 </pubmed><br />
<br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YqfG&diff=128892
YqfG
2010-11-04T13:38:39Z
<p>Heilers: /* Database entries */</p>
<hr />
<div>* '''Description:''' required for rRNA maturation <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''yqfG''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || rRNA maturation<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.193 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 471 bp, 157 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dgkA]]'', ''[[yqfF]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14461&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|-<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:yqfG_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU25320<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11656]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:''' UPF0054 family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' cell membrane (according to Swiss-Prot)<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TVI 1TVI] orthologue from ''T. maritima'' (38% identity) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P46347 P46347]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU25320]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''[[Sigma factor]]:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:'''<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
This protein family is highly conserved in bacteria. In ''E. coli'', its orthologe [http://ecoliwiki.net/colipedia/index.php/ybeY YbeY] is involved in maturation of rRNA. {{PubMed|20807199}}<br />
<br />
=References=<br />
<pubmed> 20807199 </pubmed><br />
<br />
<br />
[[Category:Protein-coding genes]]</div>
Heilers