NtdR - Revision history

134.76.70.252 at 10:00, 17 April 2014

2014-04-17T10:00:59Z

134.76.38.147 at 13:21, 2 April 2014

2014-04-02T13:21:51Z

Jstuelk at 19:51, 18 June 2013

2013-06-18T19:51:11Z

134.76.70.252 at 12:55, 16 May 2013

2013-05-16T12:55:49Z

134.76.70.252 at 09:51, 14 May 2013

2013-05-14T09:51:50Z

134.76.70.252 at 12:30, 13 May 2013

2013-05-13T12:30:02Z

Raphael2215 at 12:26, 9 August 2012

2012-08-09T12:26:39Z

134.76.70.252 at 16:32, 6 August 2012

2012-08-06T16:32:38Z

134.76.70.252 at 17:08, 18 April 2012

2012-04-18T17:08:36Z

134.76.70.252 at 17:22, 12 April 2012

2012-04-12T17:22:27Z

← Older revision		Revision as of 10:00, 17 April 2014
Line 1:		Line 1:
−	* '''Description:''' transcription activator of the ''[[ntdA]]-[[ntdB]]-[[ntdC]]-[[glcP]]'' operon <br/><br/>	+	{{#bank: NtdR}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ntdR''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yhjM''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Product''' \|\| transcriptional regulator ([[LacI family]])~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of the ''[[ntdA]]-[[ntdB]]-[[ntdC]]-[[glcP]]'' operon~~
−	\|-
−	\|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=BSU10560 ntdR]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 37 kDa, 6.645~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 987 bp, 329 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ntdA]]'', ''[[yhjN]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10560 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10560 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10560 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yhjM_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=yhjM_1129715_1130704_1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:ntdR_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU10560]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[miscellaneous metabolic pathways]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[biosynthesis of antibacterial compounds]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AbrB regulon]]}}~~
−
−	~~=The [[NtdR regulon]]:=~~
−	* ''[[ntdA]]-[[ntdB]]-[[ntdC]]-[[glcP]]''
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU10560
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU10560&redirect=T BSU10560]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ntdR.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13079]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' transcription activation of the ''[[ntdA]]-[[ntdB]]-[[ntdC]]-[[glcP]]'' operon {{PubMed\|17056753}}
−
−	* '''Protein family:''' [[LacI family]]
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU10560&redirect=T BSU10560]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O07567 O07567]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU10560]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''ntdR'' {{PubMed\|14612444}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yhjM_1129715_1130704_1 ntdR] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−	** [[AbrB]]: transcription repression {{PubMed\|20817675}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 21512256</pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>14612444 20817675 17056753 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ntdR.html]
@@ Line 90: / Line 91: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 34: / Line 34: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 111: / Line 107: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yhjM_1129715_1130704_1 ntdR] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''
@@ Line 142: / Line 138: @@
 <pubmed> 21512256</pubmed>
 ==Original publications==
-'''Additional publications:''' {{PubMed|20817675}}
+<pubmed>14612444 20817675 17056753 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 26: / Line 26: @@
   <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=yhjM_1129715_1130704_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ntdR_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yhjM_1129715_1130704_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ntdR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU10560]]
 |-
 |}

@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ntdA]]'', ''[[yhjN]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10560 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10560 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10560 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10560 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10560 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10560 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yhjM_context.gif]]

@@ Line 13: / Line 13: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of the ''[[ntdA]]-[[ntdB]]-[[ntdC]]-[[glcP]]'' operon
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU10560 ntdR]
+|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=BSU10560 ntdR]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 37 kDa, 6.645
@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ntdA]]'', ''[[yhjN]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12896&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10560 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10560 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10560 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yhjM_context.gif]]

@@ Line 1: / Line 1: @@
+* '''Description:''' transcription activator of the ''[[ntdA]]-[[ntdB]]-[[ntdC]]-[[glcP]]'' operon <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-