YvrHa - Revision history

134.76.38.147 at 14:44, 2 April 2014

2014-04-02T14:44:05Z

134.76.70.252 at 14:20, 18 November 2013

2013-11-18T14:20:59Z

134.76.70.252 at 14:32, 16 May 2013

2013-05-16T14:32:37Z

134.76.70.252 at 13:49, 13 May 2013

2013-05-13T13:49:45Z

Awiechert at 10:28, 22 November 2012

2012-11-22T10:28:15Z

134.76.70.252 at 15:51, 7 August 2012

2012-08-07T15:51:05Z

134.76.70.252 at 09:00, 23 April 2012

2012-04-23T09:00:36Z

134.76.70.252 at 06:24, 17 April 2012

2012-04-17T06:24:29Z

Umaeder at 17:10, 1 March 2012

2012-03-01T17:10:46Z

Umaeder at 17:08, 1 March 2012

2012-03-01T17:08:46Z

← Older revision		Revision as of 14:44, 2 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' co-[[sigma factor]] (with [[YvrI]]) <br/><br/>~~	+	{{#bank: YvrHa}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''yvrHa''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' rsoA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| co-[[sigma factor]] (with [[YvrI]])~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| [[RNA polymerase]] [[sigma factor]]~~
−	\|-
−	\|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=BSU33222 yvrHa]
−	\|-
−	\|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=YvrHA YvrHA]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 9.5 kDa, 4.686~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 237 bp, 79 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yvrHb]]'', ''[[yvrI]]''~~
−	\|-
−	~~\|style="background:#FAF8CC;" align="center"\|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt Gene sequence (+200bp) ]'''~~
−	~~\|style="background:#FAF8CC;" align="center"\|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''~~
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:YvrHa_yvrHb_context.GIF]]~~
−	\|-
−	\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rsoA_3409219_3409458_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:yvrHa_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33222]]
−	\|-
−	\|}
−
−	~~__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\|[[transcription]]}},~~
−	~~{{SubtiWiki category\|[[sigma factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[acid stress proteins (controlled by YvrI-YvrHa)]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[YvrHb regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[YvrI-YvrHa regulon]]}}~~
−
−	~~=The [[YvrI-YvrHa regulon]]=~~
−	* ''[[oxdC]]-[[yvrL]]''
−	* ''[[yvrI]]-[[yvrHa]]''
−	* ''[[yvrJ]]''
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU33222
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yvrI-yvrHa.html]
−
−	* '''SubtiList entry:''' does not exist
−
−	~~=== Additional information===~~
−
−	~~The sequence of the former ''yvrH'' gene was corrected, and does now contain two genes, ''[[yvrHa]]'' and ''[[yvrHb]]''.~~
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:''' corresponds to region 2 of a [[sigma factor]] {{PubMed\|19940246}}
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[YvrHa]]-[[RpoC]] {{PubMed\|19940246}}
−	** [[YvrI]]-[[YvrHa]] {{PubMed\|19940246}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/C0H3R4 C0H3R4]
−
−	* '''KEGG entry:''' no entry
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[yvrI]]-[[yvrHa]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rsoA_3409219_3409458_-1 yvrHa] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[YvrI]]-[[YvrHa]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
−
−	* '''Regulation:''' induced by acidic growth conditions [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
−
−	* '''Regulatory mechanism:''' activated by [[YvrHb]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−	~~[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>18573182, 19940246,19047353,19047353, </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=BSU33222 yvrHa]
 |-
-|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/YvrHA YvrHA]
+|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=YvrHA YvrHA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9.5 kDa, 4.686

@@ Line 29: / Line 29: @@
 |colspan="2" | '''Genetic context''' <br/> [[Image:YvrHa_yvrHb_context.GIF]]
 |-
-|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rsoA_3409219_3409458_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yvrHa_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rsoA_3409219_3409458_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yvrHa_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33222]]
 |-
 |}

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || [[RNA polymerase]] [[sigma factor]]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU33222 yvrHa]
+|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=BSU33222 yvrHa]
 |-
 |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/YvrHA YvrHA]

@@ Line 18: / Line 18: @@
 |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/YvrHA YvrHA]
 |-
-|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9.5 kDa, 4.69
+|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9.5 kDa, 4.686
 |-
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 237 bp, 79 aa

@@ Line 26: / Line 26: @@
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:YvrHa_yvrHb_context.GIF]]
 |-
 |}
 __TOC__
 <br/><br/>

@@ Line 111: / Line 111: @@
 * '''Operon:''' ''[[yvrI]]-[[yvrHa]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
-* '''[[Sigma factor]]:''' [[YvrI]]-[[YvrHa]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rsoA_3409219_3409458_-1 yvrHa] {{PubMed|22383849}}
 * '''Regulation:''' induced by acidic growth conditions [http://www.ncbi.nlm.nih.gov/sites/entrez/19047353 PubMed]

@@ Line 51: / Line 51: @@
 === Basic information ===
-* '''Locus tag:'''
+* '''Locus tag:''' BSU33222
 ===Phenotypes of a mutant ===