PtpZ - Revision history

Jstuelk at 17:06, 19 August 2015

2015-08-19T17:06:11Z

134.76.38.147 at 14:59, 2 April 2014

2014-04-02T14:59:42Z

Jstuelk at 10:23, 31 January 2014

2014-01-31T10:23:29Z

JGerwig: /* Biological materials */

2014-01-28T08:44:42Z

‎Biological materials

JGerwig: /* Biological materials */

2014-01-28T08:44:25Z

‎Biological materials

134.76.70.252 at 14:22, 18 November 2013

2013-11-18T14:22:37Z

Jstuelk at 21:19, 18 June 2013

2013-06-18T21:19:10Z

134.76.70.252 at 14:46, 16 May 2013

2013-05-16T14:46:25Z

134.76.70.252 at 11:27, 14 May 2013

2013-05-14T11:27:54Z

134.76.70.252 at 14:02, 13 May 2013

2013-05-13T14:02:31Z

← Older revision		Revision as of 17:06, 19 August 2015
Line 1:		Line 1:
−	* '''Description:~~''' [[protein kinases and phosphatases\|phosphotyrosine protein phosphatase]], antagonist to [[PtkA]] <br/><br/>~~	+	{{#bank: PtpZ}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ptpZ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ywqE ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[protein kinases and phosphatases\|phosphotyrosine protein phosphatase]], <br/>antagonist to [[PtkA]]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| protein tyrosine dephosphorylation~~
−	\|-
−	\|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=BSU36240 ptpZ]
−	\|-
−	\|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=PtpZ PtpZ]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 28 kDa, 6.66~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 762 bp, 254 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ugd]]'', ''[[ptkA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36240 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36240 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36240 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ywqE_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=ywqE_3731005_3731769_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ptpZ_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36240]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biofilm formation]]}},~~
−	~~{{SubtiWiki category\|[[protein modification]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AbrB regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU36240
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU36240&redirect=T BSU36240]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12509]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Protein tyrosine phosphate + H<sub>2</sub>O = protein tyrosine + phosphate (according to Swiss-Prot), dephosphorylation of [[Ugd]], [[TuaD]] and [[PtkA]] {{PubMed\|15866923}}
−
−	* '''Protein family:''' cpsB/capC family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU36240&redirect=T BSU36240]
−
−	* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=3QY7 3QY7] {{PubMed\|21605684}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P96717 P96717]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36240]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/3.1.3.48 3.1.3.48]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:''' ''[[tkmA]]-[[ptkA]]-[[ptpZ]]-[[ugd]]'' {{PubMed\|20815827,12970183}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywqE_3731005_3731769_-1 ptpZ] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|20815827}}
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−	** [[DegU]]-P: transcription repression {{PubMed\|20815827}}
−	** [[AbrB]]: transcription repression {{PubMed\|20817675}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP1609 (spc), available in [[ Jörg Stülke]]'s lab
−	** GP1610 (''[[ptkA]]-[[ptpZ]]'', spc), available in [[ Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>15866923,12970183, 21605684 20815827 21605684 20817675</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 55: / Line 55: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 89: / Line 90: @@
 === Database entries ===
 * '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=3QY7 3QY7] {{PubMed|21605684}}

@@ Line 61: / Line 61: @@
 === Additional information===
 =The protein=
@@ Line 79: / Line 76: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 121: / Line 118: @@
 * '''Mutant:'''
-** GP1609 (spc), available in the [[Stülke]] lab
+** GP1609 (spc), available in [[ Jörg Stülke]]'s lab
-** GP1610 (ptkA-ptpZ, spc), available in the [[Stülke]] lab
+** GP1610 (''[[ptkA]]-[[ptpZ]]'', spc), available in [[ Jörg Stülke]]'s lab
 * '''Expression vector:'''

@@ Line 120: / Line 120: @@
 =Biological materials =
-* '''Mutant:''' *
+* '''Mutant:'''
 ** GP1609 (spc), available in the [[Stülke]] lab
 ** GP1610 (ptkA-ptpZ, spc), available in the [[Stülke]] lab

@@ Line 120: / Line 120: @@
 =Biological materials =
-* '''Mutant:'''
+* '''Mutant:''' *
 * '''Expression vector:'''

@@ 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=BSU36240 ptpZ]
 |-
-|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/PtpZ PtpZ]
+|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=PtpZ PtpZ]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 6.66

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 112: / Line 108: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywqE_3731005_3731769_-1 ptpZ] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] {{PubMed|20815827}}
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|20815827}}
 * '''Regulation:'''
@@ Line 141: / Line 137: @@
 =References=
-'''Additional publications:''' {{PubMed|20817675}}
+<pubmed>15866923,12970183, 21605684 20815827 21605684 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=ywqE_3731005_3731769_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ptpZ_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywqE_3731005_3731769_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ptpZ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36240]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ugd]]'', ''[[ptkA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36240 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36240 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36240 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36240 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36240 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36240 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ywqE_context.gif]]