BirA - Revision history

Jstuelk at 13:13, 22 June 2014

2014-06-22T13:13:45Z

Jstuelk at 13:12, 22 June 2014

2014-06-22T13:12:52Z

Jstuelk at 13:01, 22 June 2014

2014-06-22T13:01:47Z

Jstuelk: /* References */

2014-05-14T07:56:49Z

‎References

134.76.70.252 at 11:50, 8 April 2014

2014-04-08T11:50:59Z

134.76.38.147 at 14:02, 2 April 2014

2014-04-02T14:02:48Z

Jstuelk: /* Original publications */

2013-11-17T17:08:45Z

‎Original publications

Jstuelk at 12:14, 1 August 2013

2013-08-01T12:14:35Z

Jstuelk at 19:15, 13 July 2013

2013-07-13T19:15:36Z

134.76.70.252 at 13:44, 16 May 2013

2013-05-16T13:44:16Z

← Older revision		Revision as of 13:13, 22 June 2014
Line 1:		Line 1:
−	* '''Description:~~''' [[trigger enzymes\|trigger enzyme]]: transcriptional repressor ([[transcription factors of the~~ BirA ~~family]]) of the biotin operon / biotin-protein ligase <br/><br/>~~	+	{{#bank: BirA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''birA''~~
−	\|-
−	~~\|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''' \|\| [[trigger enzymes\|trigger enzyme]]: transcriptional repressor ([[transcription factors of the BirA family]])/ biotin-protein ligase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of biotin synthesis, addition of biotin to proteins~~
−	\|-
−	\|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=BSU22440 birA]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=BirA BirA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 36 kDa, 6.769~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 975 bp, 325 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[panB]]'', ''[[cca]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU22440 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU22440 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU22440 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:birA_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=birA_2354918_2355895_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:birA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22440]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biosynthesis of lipids]]}},~~
−	~~{{SubtiWiki category\|[[biosynthesis of cofactors]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[trigger enzyme]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[Spx regulon]]}}~~
−
−	~~=The [[BirA regulon]]=~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU22440
−
−	~~===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=BSU22440&redirect=T BSU22440]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11206]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** transcriptional repressor of the ''[[bioW]]-[[bioA]]-[[bioF]]-[[bioD]]-[[bioB]]-[[bioI]]-[[ytbQ]]'' operon {{PubMed\|8763940,8892842}} '''and'''
−	** ATP + biotin + apo-[acetyl-CoA:carbon-dioxide ligase (ADP-forming)] = AMP + diphosphate + [acetyl-CoA:carbon-dioxide ligase (ADP-forming)] (according to Swiss-Prot)
−
−	* '''Protein family:''' ([[transcription factors of the BirA family]]), pyrroline-5-carboxylate reductase 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]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU22440&redirect=T BSU22440]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P42975 P42975]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU22440]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/6.3.4.15 6.3.4.15]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[ypjD]]-[[dapB]]-[[mgsA]]-[[bshB1]]-[[bshA]]-[[cca]]-[[birA]]'' {{PubMed\|20308541}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=birA_2354918_2355895_-1 birA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|23894131}}
−
−	* '''Regulation:'''
−	** induced by diamide stess (thiol depletion) ([[Spx]]) {{PubMed\|23894131}}
−
−	* '''Regulatory mechanism:'''
−	** [[Spx]]: transcription activation {{PubMed\|23894131}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 21437340</pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>7730294,8763940,8892842, 11717296,20308541 23894131 24189073 24816803 </pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 1: / Line 1: @@
-* '''Description:''' [[trigger enzymes|trigger enzyme]]: transcriptional repressor ([[transcription factors of the ArsR family|ArsR family]]) of the biotin operon / biotin-protein ligase <br/><br/>
+* '''Description:''' [[trigger enzymes|trigger enzyme]]: transcriptional repressor ([[transcription factors of the BirA family]]) of the biotin operon / biotin-protein ligase <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 10: / Line 10: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: transcriptional repressor ([[transcription factors of the ArsR family|ArsR family]])/ biotin-protein ligase
+|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: transcriptional repressor ([[transcription factors of the BirA family]])/ biotin-protein ligase
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of biotin synthesis, addition of biotin to proteins
@@ Line 78: / Line 78: @@
 ** ATP + biotin + apo-[acetyl-CoA:carbon-dioxide ligase (ADP-forming)] = AMP + diphosphate + [acetyl-CoA:carbon-dioxide ligase (ADP-forming)] (according to Swiss-Prot)
-* '''Protein family:''' ([[transcription factors of the ArsR family|ArsR family]]), pyrroline-5-carboxylate reductase family (according to Swiss-Prot)
+* '''Protein family:''' ([[transcription factors of the BirA family]]), pyrroline-5-carboxylate reductase family (according to Swiss-Prot)
 * '''Paralogous protein(s):'''

@@ Line 1: / Line 1: @@
-* '''Description:''' [[trigger enzymes|trigger enzyme]]: transcriptional repressor of the biotin operon / biotin-protein ligase <br/><br/>
+* '''Description:''' [[trigger enzymes|trigger enzyme]]: transcriptional repressor ([[transcription factors of the ArsR family|ArsR family]]) of the biotin operon / biotin-protein ligase <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 10: / Line 10: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: transcriptional repressor/ biotin-protein ligase
+|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: transcriptional repressor ([[transcription factors of the ArsR family|ArsR family]])/ biotin-protein ligase
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of biotin synthesis, addition of biotin to proteins
@@ Line 69: / Line 69: @@
 === Additional information===
 =The protein=
@@ Line 81: / Line 78: @@
 ** ATP + biotin + apo-[acetyl-CoA:carbon-dioxide ligase (ADP-forming)] = AMP + diphosphate + [acetyl-CoA:carbon-dioxide ligase (ADP-forming)] (according to Swiss-Prot)
-* '''Protein family:''' pyrroline-5-carboxylate reductase family (according to Swiss-Prot)
+* '''Protein family:''' ([[transcription factors of the ArsR family|ArsR family]]), pyrroline-5-carboxylate reductase family (according to Swiss-Prot)
 * '''Paralogous protein(s):'''

@@ Line 152: / Line 152: @@
 <pubmed> 21437340</pubmed>
 ==Original publications==
-<pubmed>7730294,8763940,8892842, 11717296,20308541 23894131 24189073</pubmed>
+<pubmed>7730294,8763940,8892842, 11717296,20308541 23894131 24189073 24816803 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 15: / Line 15: @@
 |-
 |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=BSU22440 birA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 36 kDa, 6.769

@@ Line 60: / Line 60: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 99: / Line 100: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 45: / Line 45: @@
 = This gene is a member of the following [[regulons]] =
 =The [[BirA regulon]]=
@@ Line 114: / Line 116: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=birA_2354918_2355895_-1 birA] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:''' [[SigA]]  {{PubMed|23894131}}
 * '''Regulation:'''
 * '''Regulatory mechanism:'''
 * '''Additional information:'''
@@ Line 144: / Line 148: @@
 <pubmed> 21437340</pubmed>
 ==Original publications==
-<pubmed>7730294,8763940,8892842, 11717296,20308541  </pubmed>
+<pubmed>7730294,8763940,8892842, 11717296,20308541 23894131 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 35: / Line 35: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 49: / Line 45: @@
 = This gene is a member of the following [[regulons]] =
-=The [[BirA regulon]]:=
+=The [[BirA regulon]]=
 =The gene=
@@ Line 146: / Line 141: @@
 =References=
-==Reviews: {{PubMed|21437340}}==
+==Reviews==
+<pubmed> 21437340</pubmed>
 ==Original publications==
-<pubmed>7730294,8763940,8892842,, </pubmed>
+<pubmed>7730294,8763940,8892842, 11717296,20308541  </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=birA_2354918_2355895_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:birA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=birA_2354918_2355895_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:birA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22440]]
 |-
 |}