QoxB - Revision history

Jstuelk: /* References */

2015-07-22T17:01:48Z

‎References

Jstuelk at 09:09, 5 May 2014

2014-05-05T09:09:24Z

134.76.70.252 at 09:56, 17 April 2014

2014-04-17T09:56:32Z

134.76.38.147 at 15:07, 2 April 2014

2014-04-02T15:07:38Z

Jstuelk at 18:24, 11 August 2013

2013-08-11T18:24:42Z

134.76.70.252 at 14:53, 16 May 2013

2013-05-16T14:53:31Z

134.76.70.252 at 11:35, 14 May 2013

2013-05-14T11:35:41Z

134.76.70.252 at 14:10, 13 May 2013

2013-05-13T14:10:14Z

134.76.70.252 at 17:13, 7 August 2012

2012-08-07T17:13:44Z

Jstuelk at 19:17, 21 July 2012

2012-07-21T19:17:35Z

← Older revision		Revision as of 17:01, 22 July 2015
Line 1:		Line 1:
−	* '''Description:~~''' cytochrome aa3 quinol oxidase (subunit I) <br/><br/>~~	+	{{#bank: QoxB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''qoxB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ipa-38d ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| cytochrome aa3 quinol oxidase (subunit I)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| respiration~~
−	\|-
−	\|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=BSU38160 qoxB]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 73 kDa, 8.848~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1947 bp, 649 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[qoxC]]'', ''[[qoxA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38160 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38160 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38160 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:qoxB_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=qoxB_3915319_3917268_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:qoxB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38160]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[respiration]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU38160
−
−	~~===Phenotypes of a mutant ===~~
−	* inactivation of ''[[qoxB]]'' restores beta-lactam resistance in a ''[[sigM]]'' mutant {{PubMed\|22211522}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU38160&redirect=T BSU38160]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10584]
−
−	~~=== Additional information===~~
−	* A mutation was found in this gene after evolution under relexed selection for sporulation {{PubMed\|21821766}}
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Ubiquinol-8 + O<sub>2</sub> = Ubiquinone-8 + H<sub>2</sub>O (according to Swiss-Prot)
−
−	* '''Protein family:''' heme-copper respiratory oxidase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[CtaD]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):''' Cu(B) {{PubMed\|10837475}}
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' cell membrane [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU38160&redirect=T BSU38160]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P34956 P34956]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU38160]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[qoxA]]-[[qoxB]]-[[qoxC]]-[[qoxD]]'' {{PubMed\|1316894}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=qoxB_3915319_3917268_-1 qoxB] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 89 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1475 {{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> 11073895 1316894 20351111,10551842,18763711, 21821766 10837475 24779955 22211522</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 138: / Line 138: @@
 =References=
-<pubmed> 11073895 1316894 20351111,10551842,18763711, 21821766 10837475 22211522</pubmed>
+<pubmed> 11073895 1316894 20351111,10551842,18763711, 21821766 10837475 24779955 22211522</pubmed>
 [[Category:Protein-coding genes]]

← Older revision		Revision as of 09:56, 17 April 2014
Line 116:		Line 116:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 89 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1475 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 54: / Line 54: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 89: / Line 90: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 80: / Line 80: @@
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''Cofactor(s):''' Cu(B) {{PubMed|10837475}}
 * '''Effectors of protein activity:'''
@@ Line 134: / Line 134: @@
 =References=
-'''Additional publications:''' {{PubMed|22211522}}
+<pubmed> 11073895 1316894 20351111,10551842,18763711, 21821766 10837475 22211522</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=qoxB_3915319_3917268_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:qoxB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=qoxB_3915319_3917268_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:qoxB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38160]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[qoxC]]'', ''[[qoxA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38160 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38160 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38160 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38160 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38160 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38160 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:qoxB_context.gif]]

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || respiration
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU38160 qoxB]
+|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=BSU38160 qoxB]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 73 kDa, 8.848
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[qoxC]]'', ''[[qoxA]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15842&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38160 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38160 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38160 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:qoxB_context.gif]]

@@ Line 33: / Line 33: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 53: / Line 49: @@
 ===Phenotypes of a mutant ===
 === Database entries ===
@@ Line 135: / Line 132: @@
 =References=
+'''Additional publications:''' {{PubMed|22211522}}
 <pubmed> 11073895 1316894 20351111,10551842,18763711, 21821766</pubmed>
 [[Category:Protein-coding genes]]