ComA - Revision history

Jstuelk: /* Original Publications */

2015-03-13T15:41:16Z

‎Original Publications

Jstuelk: /* Original Publications */

2015-01-20T09:40:09Z

‎Original Publications

Jstuelk: /* Original Publications */

2014-05-05T08:07:59Z

‎Original Publications

134.76.70.252 at 09:34, 17 April 2014

2014-04-17T09:34:46Z

134.76.38.147 at 14:38, 2 April 2014

2014-04-02T14:38:41Z

Jstuelk at 12:16, 17 January 2014

2014-01-17T12:16:50Z

Jstuelk at 14:37, 6 December 2013

2013-12-06T14:37:10Z

134.76.70.252 at 09:16, 12 November 2013

2013-11-12T09:16:25Z

134.76.70.252 at 14:27, 16 May 2013

2013-05-16T14:27:30Z

134.76.70.252 at 11:09, 14 May 2013

2013-05-14T11:09:16Z

← Older revision		Revision as of 15:41, 13 March 2015
Line 1:		Line 1:
−	* '''Description:~~''' [[two-component systems\|two-component]] system response regulator, controls gene expression in response to cell density (concentration of [[ComX]]) <br/><br/>~~	+	{{#bank: ComA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''comA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''srfB, comAA ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[two-component systems\|two-component]] system response regulator~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of [[genetic competence]] and [[quorum sensing]]~~
−	\|-
−	\|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=BSU31680 comA]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=ComA ComA]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 23 kDa, 4.759~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 642 bp, 214 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yuxO]]'', ''[[comP]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31680 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:comA_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=comA_3252804_3253448_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:comA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31680]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[genetic competence]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[quorum sensing]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−	~~=The [[ComA regulon]]=~~
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU31680
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31680&redirect=T BSU31680]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comA-yuxO.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10381]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' ComA family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:''' phosphorylated by [[ComP]] on an Asp residue
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−	** phosphorylation activates DNA binding
−	** DNA-binding activity of ComA is inhibited by [[RapC]] {{PubMed\|12950917}}, [[RapD]] {{PubMed\|17227471}}, [[RapF]] {{PubMed\|15968044,22215984}}, [[RapH]] {{PubMed\|17581123}} and [[RapK]] {{PubMed\|16816200}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[RapC]]-[[ComA]] {{PubMed\|12950917}}
−	** [[RapF]]-[[ComA]] {{PubMed\|15968044,22215984}}
−	** [[RapH]]-[[ComA]] {{PubMed\|17581123}}
−	** [[ComP]]-[[ComA]]
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31680&redirect=T BSU31680]
−
−	* '''Structure:'''
−	** [http://www.rcsb.org/pdb/explore.do?structureId=1U83 1U83]
−	** [http://www.rcsb.org/pdb/explore.do?structureId=3ULQ 3ULQ] (structure of the complex between the DNA-binding C-terminal domain of [[ComA]] with [[RapF]]) {{PubMed\|22215984}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P14204 P14204]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU31680]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/4.4.1.19 4.4.1.19]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[comA]]-[[yuxO]]'' {{PubMed\|2507523}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=comA_3252804_3253448_-1 comA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|2507523}}
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 320 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 623 {{PubMed\|24696501}}
−
−	~~=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>20030732 12576575 </pubmed>~~
−
−	~~==Original Publications==~~
−	<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 24425772 24788106 25598361</pubmed>
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 151: / Line 151: @@
 ==Original Publications==
-<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 24425772 24788106 </pubmed>
+<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 24425772 24788106 25598361</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 151: / Line 151: @@
 ==Original Publications==
-<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 24425772 </pubmed>
+<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 24425772 24788106 </pubmed>
 [[Category:Protein-coding genes]]

← Older revision		Revision as of 09:34, 17 April 2014
Line 125:		Line 125:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 320 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 623 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comA-yuxO.html]
@@ Line 97: / Line 98: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 63: / Line 63: @@
 === Additional information===
 =The protein=
@@ Line 119: / Line 116: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=comA_3252804_3253448_-1 comA] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] {{PubMed|2507523}}
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|2507523}}
 * '''Regulation:'''
@@ Line 150: / Line 147: @@
 ==Original Publications==
-<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 </pubmed>
+<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 24425772 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 85: / Line 81: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:''' phosphorylated by [[ComP]] on an Asp residue
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 154: / Line 150: @@
 ==Original Publications==
-<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984</pubmed>
+<pubmed>17227471 11133937,2116363,12067344,8387999,19202088, 10094672,8643670,11267663, 15968044 16816200, 10447896,12950917, 20302877 12270822 17581123 16816200 2507523 20208433 22215984 24130811 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 16: / Line 16: @@
 |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=BSU31680 comA]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/ComA ComA]
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=ComA ComA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 4.759

@@ Line 29: / Line 29: @@
   <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=comA_3252804_3253448_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:comA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=comA_3252804_3253448_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:comA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31680]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yuxO]]'', ''[[comP]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31680 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31680 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:comA_context.gif]]