YvrHb - Revision history

Jstuelk at 11:11, 13 June 2014

2014-06-13T11:11:14Z

134.76.70.252 at 09:32, 17 April 2014

2014-04-17T09:32:19Z

134.76.38.147 at 14:44, 2 April 2014

2014-04-02T14:44:01Z

134.76.70.252 at 14:20, 18 November 2013

2013-11-18T14:20:57Z

134.76.70.252 at 14:32, 16 May 2013

2013-05-16T14:32:34Z

134.76.70.252 at 13:49, 13 May 2013

2013-05-13T13:49:42Z

Awiechert at 10:25, 22 November 2012

2012-11-22T10:25:33Z

134.76.70.252 at 15:50, 7 August 2012

2012-08-07T15:50:56Z

134.76.70.252 at 09:00, 23 April 2012

2012-04-23T09:00:15Z

134.76.70.252 at 06:24, 17 April 2012

2012-04-17T06:24:08Z

← Older revision		Revision as of 11:11, 13 June 2014
Line 1:		Line 1:
−	* '''Description:~~''' [[two-component systems\|two-component]] response regulator <br/><br/>~~	+	{{#bank: YvrHb}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''yvrHb''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yvrH ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[two-component systems\|two-component]] response regulator~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation cell surface maintenance~~
−	\|-
−	\|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=BSU33221 yvrHb]
−	\|-
−	\|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=YvrHB YvrHB]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 27 kDa, 5.235~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 711 bp, 237 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yvrG]]'', ''[[yvrHa]]''~~
−	\|-
−	~~\|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=yvrH_3408353_3409066_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:yvrHb_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33221]]
−	\|-
−	\|}
−
−	~~__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 factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~=The [[YvrHb regulon]]=~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU33221
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~unusual autolysis and higher susceptibility to cell envelope antibiotics (bacitracin, aztreonam, cefepime, fosfomycin) [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU33221&redirect=T BSU33221]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' no entry
−
−	~~=== Additional information===~~
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' transcription activator [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
−
−	* '''Protein family:''' OmpR family
−
−	* '''Paralogous protein(s):'''
−
−	~~=== The YvrHb regulon ===~~
−
−	subject to positive control: ''[[dltA]]-[[dltB]]-[[dltC]]-[[dltD]]-[[dltE]], [[sigX]]-[[rsiX]], [[sunA]], [[sunT]]-[[bdbA]]-[[yolJ]]-[[bdbB]], [[wapA]]-[[yxxG]], [[wprA]], [[yvrI]]-[[yvrHa]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
−
−	~~subject to negative control: ''[[lytA]]-[[lytB]]-[[lytC]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]~~
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:''' phosphorylation (Asp) by [[YvrG]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:''' phosphorylation likely affects DNA-binding activity
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[YvrG]]-[[YvrHb]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU33221&redirect=T BSU33221]
−
−	* '''Structure:'''
−
−	* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P94504 P94504]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33220]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvrH_3408353_3409066_-1 yvrHb] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 267 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 459 {{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=~~
−
−	~~<pubmed>10094672,18820022,,16306698, </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 09:32, 17 April 2014
Line 130:		Line 130:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 267 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 459 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 61: / Line 61: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 104: / Line 105: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=BSU33221 yvrHb]
 |-
-|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/YvrHB YvrHB]
+|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=YvrHB YvrHB]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 5.235

@@ 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=yvrH_3408353_3409066_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yvrHb_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvrH_3408353_3409066_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yvrHb_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33221]]
 |-
 |}

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || regulation cell surface maintenance
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU33221 yvrHb]
+|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=BSU33221 yvrHb]
 |-
 |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/YvrHB YvrHB]

@@ 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/YvrHB YvrHB]
 |-
-|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26.6 kDa, 5.23
+|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 5.235
 |-
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 711 bp, 237 aa

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

@@ Line 109: / Line 109: @@
 * '''Operon:'''
-* '''[[Sigma factor]]:'''
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvrH_3408353_3409066_-1 yvrHb] {{PubMed|22383849}}
 * '''Regulation:'''