InfC - Revision history

134.76.70.252 at 09:43, 17 April 2014

2014-04-17T09:43:38Z

134.76.38.147 at 14:28, 2 April 2014

2014-04-02T14:28:35Z

Jstuelk: /* References */

2013-08-20T13:06:41Z

‎References

Jstuelk: /* References */

2013-08-20T13:06:00Z

‎References

134.76.70.252 at 14:14, 16 May 2013

2013-05-16T14:14:16Z

134.76.70.252 at 10:58, 14 May 2013

2013-05-14T10:58:04Z

134.76.70.252 at 13:33, 13 May 2013

2013-05-13T13:33:14Z

Jstuelk at 20:42, 10 January 2013

2013-01-10T20:42:48Z

134.76.70.252 at 14:45, 7 August 2012

2012-08-07T14:45:48Z

134.76.70.252 at 10:43, 20 April 2012

2012-04-20T10:43:05Z

← Older revision		Revision as of 09:43, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' translation initiation factor IF-3 <br/><br/>~~	+	{{#bank: InfC}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''infC''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| initiation factor IF-3~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| translation~~
−	\|-
−	\|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=BSU28870 infC]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 19 kDa, 10.342~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 519 bp, 173 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[rpmI]]'', ''[[yscB]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28870 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:infC_context.gif]]~~
−	~~<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>~~
−	\|-
−	\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=infC_2952828_2953349_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:infC_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28870]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<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 =~~
−	~~{{SubtiWiki category\|[[translation]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[RplT regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU28870
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28870&redirect=T BSU28870]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/infC-rpmI-rplT-ysdA.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11944]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' IF-3 family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28870&redirect=T BSU28870]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TIF 1TIF] (N-terminal domain, Geobacillus stearothermophilus), [http://www.rcsb.org/pdb/explore.do?structureId=1TIG 1TIG] (C-terminal domain, Geobacillus stearothermophilus)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P55872 P55872]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU28870]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:''' ''[[infC]]-[[rpmI]]-[[rplT]]-[[ysdA]]'' {{PubMed\|17289755}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=infC_2952828_2953349_-1 infC] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|17289755}}
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−
−	* '''Regulatory mechanism:'''
−	** binding of [[RplT]] to a [[RNA switch]] in the ''[[infC]]'' leader region causes transcription termination {{PubMed\|17289755}}
−
−	* '''Additional information:'''
−	** expression of [[infC\|IF3]] is uncoupled from that of [[rpmI\|L35]] and [[rplT\|L20]] by [[rny\|RNase Y]]-dependent processing {{PubMed\|21843271}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>17289755 11948165 21843271 7664745 21303765 23584454 </pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 60: / Line 60: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/infC-rpmI-rplT-ysdA.html]
@@ Line 97: / Line 98: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TIF 1TIF] (N-terminal domain, Geobacillus stearothermophilus),  [http://www.rcsb.org/pdb/explore.do?structureId=1TIG 1TIG] (C-terminal domain, Geobacillus stearothermophilus)

@@ Line 143: / Line 143: @@
 =References=
-<pubmed>17289755 11948165 21843271 7664745 21303765</pubmed>
+<pubmed>17289755 11948165 21843271 7664745 21303765 23584454 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 143: / Line 143: @@
 =References=
-'''Additional publications:''' {{PubMed|21303765}}
+<pubmed>17289755 11948165 21843271 7664745 21303765</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 27: / Line 27: @@
   <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 |-
-|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=infC_2952828_2953349_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:infC_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=infC_2952828_2953349_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:infC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28870]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmI]]'', ''[[yscB]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28870 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28870 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:infC_context.gif]]

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || translation
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU28870 infC]
+|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=BSU28870 infC]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 19 kDa, 10.342
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmI]]'', ''[[yscB]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14847&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28870 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:infC_context.gif]]

@@ Line 20: / Line 20: @@
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 519 bp, 173 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmI]]'', ''[[yscA]]''
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmI]]'', ''[[yscB]]''
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14847&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''