PnbA - Revision history

Jstuelk at 11:35, 1 August 2014

2014-08-01T11:35:06Z

134.76.70.252 at 14:11, 17 April 2014

2014-04-17T14:11:58Z

134.76.70.252 at 09:25, 17 April 2014

2014-04-17T09:25:15Z

134.76.38.147 at 14:50, 2 April 2014

2014-04-02T14:50:25Z

Jstuelk: /* References */

2014-02-19T13:19:24Z

‎References

134.76.70.252 at 14:38, 16 May 2013

2013-05-16T14:38:28Z

134.76.70.252 at 11:20, 14 May 2013

2013-05-14T11:20:34Z

134.76.70.252 at 13:55, 13 May 2013

2013-05-13T13:55:12Z

134.76.70.252 at 16:14, 7 August 2012

2012-08-07T16:14:48Z

134.76.70.252 at 09:47, 23 April 2012

2012-04-23T09:47:56Z

← Older revision		Revision as of 11:35, 1 August 2014
Line 1:		Line 1:
−	* '''Description:~~''' para-nitrobenzyl esterase <br/><br/>~~	+	{{#bank: PnbA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''pnbA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''estB ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| para-nitrobenzyl esterase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| lipid degradation~~
−	\|-
−	\|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=BSU34390 pnbA]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 53 kDa, 4.776~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1467 bp, 489 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[slrR]]'', ''[[padC]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34390 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34390 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34390 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:pnbA_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=pnbA_3530635_3532104_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:pnbA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34390]]
−	\|-
−	\|}
−
−	~~__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\|[[utilization of lipids]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AbrB regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU34390
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34390&redirect=T BSU34390]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11844]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Triacylglycerol + H<sub>2</sub>O = diacylglycerol + a carboxylate (according to Swiss-Prot)
−
−	* '''Protein family:''' type-B carboxylesterase/lipase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:''' phosphorylation on Ser-189 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34390&redirect=T BSU34390]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1C7J 1C7J] {{PubMed\|10535917}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P37967 P37967]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34390]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/3.1.1.3 3.1.1.3] 3.1.1.1]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pnbA_3530635_3532104_1 pnbA] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−	** repressed during logarithmic growth ([[AbrB]]) {{PubMed\|18840696}}
−
−	* '''Regulatory mechanism:'''
−	** [[AbrB]]: transcription repression {{PubMed\|18840696}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 745 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 382 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 676 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 446 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 891 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:'''
−	** GP951 (''pnbA''::''cat''), available in [[Stülke]] lab
−	** GP955 (''[[slrR]]''-''pnbA''::''cat''), available in [[Stülke]] lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>7828905,21574267,17218307, 10535917 22127613</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 124: / Line 124: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 745 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 382 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''
 ** GP951 (''pnbA''::''cat''), available in [[Stülke]] lab

← Older revision		Revision as of 09:25, 17 April 2014
Line 122:		Line 122:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 745 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 382 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 94: / Line 95: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1C7J 1C7J]	{{PubMed|10535917}}

@@ Line 142: / Line 142: @@
 =References=
-'''Additional publications:'''  {{PubMed|22127613}}
-<pubmed>7828905,21574267,17218307, 10535917 </pubmed>
+<pubmed>7828905,21574267,17218307, 10535917 22127613</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=pnbA_3530635_3532104_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:pnbA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pnbA_3530635_3532104_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:pnbA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34390]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[slrR]]'', ''[[padC]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34390 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34390 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34390 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34390 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34390 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34390 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:pnbA_context.gif]]

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || lipid degradation
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU34390 pnbA]
+|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=BSU34390 pnbA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 53 kDa, 4.776
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[slrR]]'', ''[[padC]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15444&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34390 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34390 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34390 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:pnbA_context.gif]]