Fur - Revision history

Jstuelk: /* Other original publications */

2014-12-11T11:44:27Z

‎Other original publications

Jstuelk at 12:22, 19 September 2014

2014-09-19T12:22:01Z

Jstuelk: /* References */

2014-09-19T10:55:06Z

‎References

Jstuelk: /* Reviews */

2014-09-19T10:54:32Z

‎Reviews

134.76.38.147 at 14:08, 2 April 2014

2014-04-02T14:08:08Z

134.76.70.252 at 11:08, 7 January 2014

2014-01-07T11:08:41Z

134.76.70.252 at 13:49, 16 May 2013

2013-05-16T13:49:58Z

134.76.70.252 at 10:38, 14 May 2013

2013-05-14T10:38:31Z

134.76.70.252 at 13:13, 13 May 2013

2013-05-13T13:13:02Z

Awiechert at 13:52, 3 December 2012

2012-12-03T13:52:24Z

← Older revision		Revision as of 11:44, 11 December 2014
Line 1:		Line 1:
−	* '''Description:~~''' transcription regulator of iron homoeostasis, sensor of Fe sufficiency <br/><br/>~~	+	{{#bank: Fur}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''fur''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yqkL ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| transcriptional repressor [[Fur family]]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of iron homoeostasis~~
−	~~and transcription of ferri-siderophore uptake 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=BSU23520 fur]
−	~~and transcription of ferri-siderophore uptake genes~~
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://cellpublisher.gobics.de/view/GqbblRJkBH Metal ion homeostasis], [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=fur fur]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 17 kDa, 5.374~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 447 bp, 149 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yqzK]]'', ''[[spoIIM]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU23520 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU23520 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU23520 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:fur_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=fur_2449841_2450290_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:fur_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU23520]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	* {{SubtiWiki category\|[[acquisition of iron]]}},
−	~~{{SubtiWiki category\|[[iron metabolism]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}}~~
−	* see also: [[glutamate metabolism]]
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[PerR regulon]]}}~~
−	~~=The [[Fur regulon]]=~~
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU23520
−
−	~~===Phenotypes of a mutant ===~~
−	* no growth with glucose and ammonium as single sources of carbon and nitrogen, respectively (due to [[FsrA]]-mediated repression of the ''[[gltA]]-[[gltB]]'' operon) {{PubMed\|22389480}}
−	* poor frowth on lactate as single carbon source (due to overexpression of [[FsrA]]-mediated repression of the ''[[lutA]]-[[lutB]]-[[lutC]]'' operon, can be suppressed by inactivation of ''[[fsrA]]'' or ''[[fbpB]]'') {{PubMed\|22427629}}
−	* transcription profile of a ''[[fur]]'' mutant strain: [http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE27416 GEO] {{PubMed\|22389480}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU23520&redirect=T BSU23520]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fur.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11766]
−
−	* '''GEO entry:''' [http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE27416 GEO] {{PubMed\|22389480}}
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' [[Fur family]]
−
−	* '''Paralogous protein(s):''' [[PerR]], [[Zur]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):''' contains an iron-sulfur cluster
−
−	* '''Effectors of protein activity:'''
−	** DNA binding activity (repression) is triggered by binding of Fe(II) {{PubMed\|23057863}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU23520&redirect=T BSU23520]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P54574 P54574]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU23520]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''fur'' {{PubMed\|12029044}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=fur_2449841_2450290_-1 fur] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|12029044}}
−
−	* '''Regulation:'''
−	** repressed in the absence of hydrogen peroxide ([[PerR]]) {{PubMed\|12029044}}
−
−	* '''Regulatory mechanism:'''
−	** [[PerR]]: transcription repression {{PubMed\|12029044}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:''' HB6543 (aphA3), available in the [[John Helmann]] lab; also available in the [[Stülke]] lab GP879 (''fur::mls'') and GP868 (''fur::mls'', ''perR::spc'')
−	** 1A910 ( ''fur''::''kan''), {{PubMed\|12029044}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A910&Search=1A910 BGSC]
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−	~~[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 15802251 25209494 25160631 </pubmed>~~
−	~~==The [[Fur regulon]]==~~
−	~~<pubmed> 12374814,12354229, 22389480 21873409</pubmed>~~
−	~~==Other original publications==~~
−	~~<pubmed>18487332,14563870,18697947,10400588,11790741,16672620,12207695,9701813,12029044,22427629,17725565,17012385,12950915,19508286 , 16672620, 23057863</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 1: / Line 1: @@
-* '''Description:''' transcription regulator of iron homoeostasis <br/><br/>
+* '''Description:''' transcription regulator of iron homoeostasis, sensor of Fe sufficiency <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 41: / Line 41: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 152: / Line 152: @@
 =References=
 ==Reviews==
-<pubmed> 15802251 25209494 </pubmed>
+<pubmed> 15802251 25209494 25160631 </pubmed>
 ==The [[Fur regulon]]==
 <pubmed> 12374814,12354229, 22389480 21873409</pubmed>

@@ Line 153: / Line 153: @@
 ==Reviews==
 <pubmed> 15802251 25209494 </pubmed>
 ==The [[Fur regulon]]==
-'''Addititonal publications:''' {{PubMed|21873409}}
+<pubmed> 12374814,12354229, 22389480 21873409</pubmed>
 ==Other original publications==
-'''Addititonal publications:''' {{PubMed|23057863}}
+<pubmed>18487332,14563870,18697947,10400588,11790741,16672620,12207695,9701813,12029044,22427629,17725565,17012385,12950915,19508286 , 16672620, 23057863</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 152: / Line 152: @@
 =References=
 ==Reviews==
-<pubmed> 15802251 </pubmed>
+<pubmed> 15802251 25209494 </pubmed>
 ==The [[Fur regulon]]==
 '''Addititonal publications:''' {{PubMed|21873409}}

@@ Line 64: / Line 64: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fur.html]
@@ Line 101: / Line 102: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 18: / Line 18: @@
 and transcription of ferri-siderophore uptake genes
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://cellpublisher.gobics.de/view/GqbblRJkBH Metal ion homeostasis], [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Alternative nitrogen sources], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://cellpublisher.gobics.de/view/GqbblRJkBH Metal ion homeostasis], [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=fur fur]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 5.374

@@ Line 33: / Line 33: @@
   <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=fur_2449841_2450290_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:fur_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=fur_2449841_2450290_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:fur_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU23520]]
 |-
 |}

@@ Line 26: / Line 26: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqzK]]'', ''[[spoIIM]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU23520 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU23520 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU23520 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU23520 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU23520 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU23520 DNA_with_flanks]
 |-
 |-

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 447 bp, 149 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ripX]]'', ''[[spoIIM]]''
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqzK]]'', ''[[spoIIM]]''
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14284&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''