AhrC - Revision history

Jstuelk at 18:26, 12 June 2014

2014-06-12T18:26:07Z

Jstuelk at 18:25, 12 June 2014

2014-06-12T18:25:44Z

134.76.38.147 at 14:10, 2 April 2014

2014-04-02T14:10:51Z

134.76.70.252 at 11:10, 7 January 2014

2014-01-07T11:10:54Z

134.76.70.252 at 13:52, 16 May 2013

2013-05-16T13:52:37Z

134.76.70.252 at 10:41, 14 May 2013

2013-05-14T10:41:15Z

134.76.70.252 at 13:15, 13 May 2013

2013-05-13T13:15:37Z

Jstuelk at 14:44, 8 October 2012

2012-10-08T14:44:01Z

134.76.70.252 at 11:30, 7 August 2012

2012-08-07T11:30:46Z

Jstuelk: /* Categories containing this gene/protein */

2012-06-03T18:12:46Z

‎Categories containing this gene/protein

← Older revision		Revision as of 18:26, 12 June 2014
Line 1:		Line 1:
−	* '''Description:~~''' transcriptional regulator of the [[transcription factors of the ArgR family\|ArgR family]],~~ AhrC ~~represses the genes for arginine biosynthesis and activates the genes for arginine catabolism. <br/><br/>~~	+	{{#bank: AhrC}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ahrC''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''argR''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| transcriptional regulator ([[transcription factors of the ArgR family\|ArgR family]])~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| transcriptional regulator of arginine metabolic genes~~
−	\|-
−	\|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=BSU24250 ahrC]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=ahrC ahrC]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 16,7 kDa, 5.52~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 447 bp, 149 amino acids~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[recN]]'', ''[[yqxC]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24250 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24250 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24250 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ahrC_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=ahrC_2522324_2522773_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ahrC_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24250]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biosynthesis/ acquisition of amino acids]]}}, [[glutamate metabolism]],~~
−	~~{{SubtiWiki category\|[[utilization of amino acids]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SR1 regulon]]}}~~
−	~~=The [[AhrC regulon]]=~~
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU24250
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24250&redirect=T BSU24250]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ahrC-recN.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10309]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' transcriptional activator/ repressor of genes involved in arginine metabolism
−
−	* '''Protein family:''' argR family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):''' L-arginine is the co-factor required for transcription repression/ activation
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' Cytoplasm
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24250&redirect=T BSU24250]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2P5M 2P5M] (C-Terminus), [http://www.rcsb.org/pdb/explore.do?structureId=2P5K 2P5K] (complex with an 18bp DNA operator), [http://www.rcsb.org/pdb/explore.do?structureId=2P5L 2P5L] (N-terminus), [http://www.rcsb.org/pdb/explore.do?structureId=1F9N 1F9N], [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=18637 NCBI] [http://www.ncbi.nlm.nih.gov/sites/entrez/18455186 PubMed],N-Terminus [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=60156 NCBI], C-Terminus [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=60157 NCBI], complex with an 18bp DNA operator [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=62912 NCBI]
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P17893 P17893]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24250]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[ahrC]]-[[recN]]'' {{PubMed\|2106508}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ahrC_2522324_2522773_-1 ahrC] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−	** by [[sRNA]] [[sr1]]
−
−	* '''Regulatory mechanism:'''
−	** inhibtion of translation upon binding of [[sr1]] to the ''ahrC'' mRNA [http://www.ncbi.nlm.nih.gov/sites/entrez/17020585 PubMed]
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:''' GP729 (aphA3), available in [[Stülke]] lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Simon Phillips\|Simon Phillips]], Leeds University, UK [http://www.astbury.leeds.ac.uk/People/staffpage.php?StaffID=SEVP Homepage]~~
−
−	[[Michel Debarbouille]], Pasteur Institute, Paris, France [http://www.pasteur.fr/ip/easysite/go/03b-00000m-0ob/recherche/departements-scientifiques/microbiologie/unites-et-groupes/unite-de-biologie-des-bacteries-pathogenes-a-gram-positif/les-membres-de-l-equipe Homepage]
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~'''Additional publications:''' {{PubMed\|23034808}}~~
−	~~<pubmed>17020585 17576690 18455186 18007040 18007039 11856827 11305941 9383188 7565595 1312212, 2106508</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 1: / Line 1: @@
-* '''Description:''' AhrC represses the genes for arginine biosynthesis and activates the genes for arginine catabolism. <br/><br/>
+* '''Description:''' transcriptional regulator of the [[transcription factors of the ArgR family|ArgR family]], AhrC represses the genes for arginine biosynthesis and activates the genes for arginine catabolism. <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 10: / Line 10: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator
+|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator ([[transcription factors of the ArgR family|ArgR family]])
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || transcriptional regulator of arginine metabolic genes
@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 63: / Line 63: @@
 === Additional information===

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ahrC-recN.html]
@@ Line 92: / Line 93: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2P5M 2P5M] (C-Terminus),  [http://www.rcsb.org/pdb/explore.do?structureId=2P5K 2P5K] (complex with an 18bp DNA operator),  [http://www.rcsb.org/pdb/explore.do?structureId=2P5L 2P5L] (N-terminus),  [http://www.rcsb.org/pdb/explore.do?structureId=1F9N 1F9N],  [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=18637 NCBI] [http://www.ncbi.nlm.nih.gov/sites/entrez/18455186 PubMed],N-Terminus [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=60156 NCBI], C-Terminus [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=60157 NCBI], complex with an 18bp DNA operator [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=62912 NCBI]

@@ 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=BSU24250 ahrC]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/glutamate.html Ammonium/ glutamate]'''
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=ahrC ahrC]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 16,7 kDa, 5.52

@@ 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=ahrC_2522324_2522773_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ahrC_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ahrC_2522324_2522773_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ahrC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24250]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[recN]]'', ''[[yqxC]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24250 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24250 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24250 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24250 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24250 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24250 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ahrC_context.gif]]

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/><br/><br/><br/><br/>
@@ Line 142: / Line 138: @@
 =References=
+'''Additional publications:''' {{PubMed|23034808}}
 <pubmed>17020585 17576690 18455186 18007040 18007039 11856827 11305941 9383188 7565595 1312212, 2106508</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 42: / Line 42: @@
 = [[Categories]] containing this gene/protein =
-{{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}},
+{{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}}, [[glutamate metabolism]],
 {{SubtiWiki category|[[utilization of amino acids]]}},
 {{SubtiWiki category|[[transcription factors and their control]]}}