PbpH - Revision history

134.76.38.147 at 13:34, 2 April 2014

2014-04-02T13:34:24Z

Jstuelk at 09:24, 5 March 2014

2014-03-05T09:24:26Z

Jstuelk at 09:09, 5 March 2014

2014-03-05T09:09:39Z

Jstuelk: /* References */

2013-12-28T10:31:52Z

‎References

Jstuelk at 19:56, 18 June 2013

2013-06-18T19:56:01Z

134.76.70.252 at 13:08, 16 May 2013

2013-05-16T13:08:24Z

134.76.70.252 at 10:04, 14 May 2013

2013-05-14T10:04:18Z

134.76.70.252 at 12:41, 13 May 2013

2013-05-13T12:41:29Z

134.76.70.252 at 09:00, 7 August 2012

2012-08-07T09:00:59Z

134.76.70.252 at 08:24, 19 April 2012

2012-04-19T08:24:19Z

← Older revision		Revision as of 13:34, 2 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' class B [[penicillin-binding protein]] H, required for [[cell wall synthesis]] during cell elongation <br/><br/>~~	+	{{#bank: PbpH}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''pbpH''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ykuA ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[penicillin-binding protein]] H~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| formation of a rod-shaped peptidoglycan cell wall~~
−	\|-
−	\|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=BSU13980 pbpH]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 76 kDa, 8.888~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 2055 bp, 685 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ykwD]]'', ''[[kinA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13980 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13980 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13980 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ykuA_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=pbpH_1467805_1469862_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:pbpH_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13980]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[cell wall synthesis]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AbrB regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU13980
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13286]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** required for [[cell wall synthesis]] during cell elongation {{PubMed\|12896990}}
−	** driver of [[MreB]] dynamics {{PubMed\|21636744,21636745}}
−
−	* '''Protein family:''' transpeptidase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** part of the [[elongasome]] {{PubMed\|21636744,21636745}}
−
−	* '''[[Localization]]:'''
−	** cell membrane (according to Swiss-Prot)
−	** localization depends on the availability of peptidoglyan precursors (lipid II) {{PubMed\|23895585}}
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/Q796K8 Q796K8]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13980]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pbpH_1467805_1469862_1 pbpH] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−	** [[AbrB]]: transcription repression {{PubMed\|20817675}}
−
−	* '''Additional information:'''
−	** A [[ncRNA]] is predicted between ''[[ykwD]]'' and ''[[pbpH]]'' {{PubMed\|20525796}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed> 12896990 20525796 21636744,21636745 20817675 23199363 23895585 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 1: / Line 1: @@
-* '''Description:''' class B [[penicillin-binding protein]] H <br/><br/>
+* '''Description:''' class B [[penicillin-binding protein]] H, required for [[cell wall synthesis]] during cell elongation <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 68: / Line 68: @@
 * '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:''' transpeptidase family (according to Swiss-Prot)
@@ Line 86: / Line 88: @@
 * '''[[SubtInteract|Interactions]]:'''
-** part of the [[cell wall biosynthetic complex]] {{PubMed|21636744,21636745}}
+** part of the [[elongasome]] {{PubMed|21636744,21636745}}
 * '''[[Localization]]:'''
 ** cell membrane (according to Swiss-Prot)
 === Database entries ===

@@ Line 1: / Line 1: @@
-* '''Description:''' [[penicillin-binding protein]] H <br/><br/>
+* '''Description:''' class B [[penicillin-binding protein]] H <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 77: / Line 77: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 88: / Line 88: @@
 ** part of the [[cell wall biosynthetic complex]] {{PubMed|21636744,21636745}}
-* '''[[Localization]]:''' cell membrane (according to Swiss-Prot)
+* '''[[Localization]]:'''
 === Database entries ===
@@ Line 137: / Line 138: @@
 =References=
-<pubmed> 12896990 20525796 21636744,21636745 20817675 23199363</pubmed>
+<pubmed> 12896990 20525796 21636744,21636745 20817675 23199363 23895585 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 137: / Line 137: @@
 =References=
-<pubmed> 12896990 20525796 21636744,21636745 20817675 </pubmed>
+<pubmed> 12896990 20525796 21636744,21636745 20817675 23199363</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 112: / Line 108: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pbpH_1467805_1469862_1 pbpH] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''
@@ Line 141: / Line 137: @@
 =References=
-'''Additional publications:''' {{PubMed|20817675}}
+<pubmed> 12896990 20525796 21636744,21636745 20817675 </pubmed>
 [[Category:Protein-coding genes]]

@@ 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=pbpH_1467805_1469862_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:pbpH_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pbpH_1467805_1469862_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:pbpH_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13980]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykwD]]'', ''[[kinA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13980 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13980 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13980 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13980 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13980 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13980 DNA_with_flanks]
 |-
 |-

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || formation of a rod-shaped peptidoglycan cell wall
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU13980 pbpH]
+|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=BSU13980 pbpH]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 76 kDa, 8.888
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykwD]]'', ''[[kinA]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13271&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13980 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13980 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13980 Advanced_DNA]
 |-
 |-