RhgR - Revision history

Jstuelk: /* The protein */

2014-06-07T16:34:08Z

‎The protein

Jstuelk at 15:54, 7 June 2014

2014-06-07T15:54:17Z

Jstuelk: Jstuelk moved page YesS to RhgR: 24391637

2014-06-07T15:19:11Z

Jstuelk moved page YesS to RhgR: 24391637

134.76.38.147 at 13:09, 2 April 2014

2014-04-02T13:09:52Z

Jstuelk at 13:17, 7 January 2014

2014-01-07T13:17:38Z

134.76.70.252 at 15:21, 11 November 2013

2013-11-11T15:21:56Z

134.76.70.252 at 12:44, 16 May 2013

2013-05-16T12:44:17Z

134.76.70.252 at 09:39, 14 May 2013

2013-05-14T09:39:48Z

134.76.70.252 at 12:19, 13 May 2013

2013-05-13T12:19:28Z

Raphael2215 at 09:01, 13 August 2012

2012-08-13T09:01:52Z

← Older revision		Revision as of 16:34, 7 June 2014
Line 1:		Line 1:
−	* '''Description:''' transcriptional activator ([[transcription factors of the AraC family\|AraC family]]) of the rhamnogalacturonan operon <br/><br/>	+	{{#bank: RhgR}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''rhgR''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yesS ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| transcriptional activator of the rhamnogalacturonan operon~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of pectin utilization~~
−	\|-
−	~~\|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=BSU07010 rhgR]~~
−	\|-
−	\|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=RhgR ~~RhgR]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 87 kDa, 7.77~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 2283 bp, 761 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[rhiN]]'', ''[[yesT]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07010 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yesS_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=yesS_765838_768123_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:yesS_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07010]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[utilization of specific carbon sources]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[RhgR regulon]]}}~~
−
−	~~=The [[RhgR regulon]]:=~~
−	* ''[[rhgR]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]''
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU07010
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07010&redirect=T BSU07010]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12853]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:''' [[PtsH\|HPr]]-binding domain: aa 406 - 510 {{PubMed\|19651770}}
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:''' interaction with [[PtsH\|HPr(His)-P]] (occurs in the absence of preferred carbon sources) stimulates YesS activity {{PubMed\|19651770}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[RhgR]] is a member of a suspected group of hubs proteins that were suggested to be involved in a large number of [[SubtInteract\|interactions]] {{PubMed\|21630458}}
−	** [[PtsH\|HPr(His)-P]]-[[RhgR]] {{PubMed\|19651770}}
−
−	* '''[[Localization]]:''' cell membrane (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07010&redirect=T BSU07010]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O31522 O31522]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07010]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[rhgR]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]'' {{PubMed\|19651770}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesS_765838_768123_1 rhgR] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:''' induced by pectin ([[RhgR]]) {{PubMed\|19651770}}
−
−	* '''Regulatory mechanism:''' [[RhgR]]: transcriptional activation {{PubMed\|19651770}}
−
−	* '''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=~~
−	~~<pubmed> 19651770 17449691 21630458 24391637 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 1: / Line 1: @@
-* '''Description:''' transcriptional activator (AraC family) of the rhamnogalacturonan operon  <br/><br/>
+* '''Description:''' transcriptional activator ([[transcription factors of the AraC family|AraC family]]) of the rhamnogalacturonan operon  <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-
 |style="background:#ABCDEF;" align="center"|'''Gene name'''
-|''yesS''
+|''rhgR''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yesS ''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
@@ Line 13: / Line 13: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of pectin utilization
 |-
-|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=BSU07010 yesS]
+|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=BSU07010 rhgR]
 |-
-|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=YesS YesS]
+|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=RhgR RhgR]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 87 kDa, 7.77
@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2283 bp, 761 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yesR]]'', ''[[yesT]]''
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rhiN]]'', ''[[yesT]]''
 |-
 |style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07010 DNA_with_flanks]
@@ Line 44: / Line 44: @@
 = This gene is a member of the following [[regulons]] =
-{{SubtiWiki regulon|[[YesS regulon]]}}
+{{SubtiWiki regulon|[[RhgR regulon]]}}
-=The [[YesS regulon]]:=
+=The [[RhgR regulon]]:=
-* ''[[yesS]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]''
+* ''[[rhgR]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]''
 =The gene=
@@ Line 88: / Line 88: @@
 * '''[[SubtInteract|Interactions]]:'''
-** [[YesS]] is a member of a suspected group of hubs proteins that were suggested to be involved in a large number of [[SubtInteract|interactions]] {{PubMed|21630458}}
+** [[RhgR]] is a member of a suspected group of hubs proteins that were suggested to be involved in a large number of [[SubtInteract|interactions]] {{PubMed|21630458}}
-** [[PtsH|HPr(His)-P]]-[[YesS]] {{PubMed|19651770}}
+** [[PtsH|HPr(His)-P]]-[[RhgR]] {{PubMed|19651770}}
 * '''[[Localization]]:''' cell membrane (according to Swiss-Prot)
@@ Line 108: / Line 108: @@
 =Expression and regulation=
-* '''Operon:''' ''[[yesS]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]'' {{PubMed|19651770}}
+* '''Operon:''' ''[[rhgR]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]'' {{PubMed|19651770}}
-* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesS_765838_768123_1 yesS] {{PubMed|22383849}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesS_765838_768123_1 rhgR] {{PubMed|22383849}}
 * '''[[Sigma factor]]:'''
-* '''Regulation:''' induced by pectin ([[YesS]]) {{PubMed|19651770}}
+* '''Regulation:''' induced by pectin ([[RhgR]]) {{PubMed|19651770}}
-* '''Regulatory mechanism:''' [[YesS]]: transcriptional activation {{PubMed|19651770}}
+* '''Regulatory mechanism:''' [[RhgR]]: transcriptional activation {{PubMed|19651770}}
 * '''Additional information:'''

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 93: / Line 94: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 36: / Line 36: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 82: / Line 78: @@
 * '''Kinetic information:'''
-* '''Domains:'''  [[PtsH|HPr]]-binding domain: aa 406 - 510 {{PubMed|19651770}}
+* '''[[Domains]]:'''  [[PtsH|HPr]]-binding domain: aa 406 - 510 {{PubMed|19651770}}
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:''' interaction with [[PtsH|HPr(His)-P]] (occurs in the absence of preferred carbon sources) stimulates YesS activity {{PubMed|19651770}}
@@ Line 114: / Line 110: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesS_765838_768123_1 yesS] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:''' induced by pectin ([[YesS]]) {{PubMed|19651770}}
@@ Line 141: / Line 137: @@
 =References=
-<pubmed> 19651770 17449691 21630458</pubmed>
+<pubmed> 19651770 17449691 21630458 24391637 </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=BSU07010 yesS]
 |-
-|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/YesS YesS]
+|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=YesS YesS]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 87 kDa, 7.77

← Older revision	Revision as of 15:19, 7 June 2014
(No difference)

@@ Line 28: / Line 28: @@
   <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=yesS_765838_768123_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yesS_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesS_765838_768123_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yesS_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07010]]
 |-
 |}

@@ Line 23: / Line 23: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yesR]]'', ''[[yesT]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07010 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07010 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yesS_context.gif]]