YciC - Revision history

Jstuelk: /* Expression and regulation */

2015-02-06T16:52:18Z

‎Expression and regulation

Jstuelk: /* Expression and regulation */

2015-02-06T15:50:49Z

‎Expression and regulation

134.76.70.252 at 10:03, 17 April 2014

2014-04-17T10:03:38Z

134.76.70.252 at 11:53, 8 April 2014

2014-04-08T11:53:24Z

134.76.38.147 at 12:57, 2 April 2014

2014-04-02T12:57:31Z

Jstuelk: /* References */

2013-07-31T14:11:07Z

‎References

134.76.70.252 at 12:31, 16 May 2013

2013-05-16T12:31:18Z

134.76.70.252 at 09:26, 14 May 2013

2013-05-14T09:26:58Z

134.76.70.252 at 12:07, 13 May 2013

2013-05-13T12:07:01Z

Awiechert at 08:14, 29 November 2012

2012-11-29T08:14:52Z

← Older revision		Revision as of 16:52, 6 February 2015
Line 1:		Line 1:
−	* '''Description:~~''' putative metallochaperone <br/><br/>~~	+	{{#bank: YciC}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''yciC''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| putative metallochaperone~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| zinc uptake~~
−	\|-
−	\|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=BSU03360 yciC]
−	\|-
−	\|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=yciC yciC]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 45 kDa, 4.399~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1191 bp, 397 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yczL]]'', ''[[yckA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU03360 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU03360 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU03360 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yciC_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=yciC_366063_367256_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:yciC_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU03360]]
−	\|-
−	\|}
−
−	~~__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\|[[trace metal homeostasis (Cu, Zn, Ni, Mn, Mo)]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[Zur regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU03360
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU03360&redirect=T BSU03360]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yciABC.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12021]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' cobW C-terminal domain (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−	** phosphorylated on Arg-58 {{PubMed\|22517742}}
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU03360&redirect=T BSU03360]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P94400 P94400]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU03360]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−	** ''[[folE2]]-[[yciB]]-[[yciC]]'' {{PubMed\|9811636}}
−	** ''yciC'' {{PubMed\|12426338}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yciC_366063_367256_1 yciC] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−	** ''[[folE2]]'':[[SigA]] {{PubMed\|12426338}}
−	** ''[[yciC]]'':[[SigA]] {{PubMed\|12426338}}
−
−	* '''Regulation:'''
−	** ''[[folE2]]'': induced by zinc starvation ([[Zur]]) {{PubMed\|12426338}}
−	** ''[[yciC]]'': induced by zinc starvation ([[Zur]]) {{PubMed\|12426338}}
−
−	* '''Regulatory mechanism:'''
−	** ''[[folE2]]'': [[Zur]]: transcription repression in the presence of zinc {{PubMed\|12426338}}
−	** ''[[yciC]]'': [[Zur]]: transcription repression in the presence of zinc {{PubMed\|12426338}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 448 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''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=~~
−
−	~~<pubmed>12426338,9811636,18344368,22517742,18763711, 23406412 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 114: / Line 114: @@
 * '''Operon:'''
-** ''[[yciA]]-[[yciB]]-[[yciC]]'' {{PubMed|9811636}}
+** ''[[folE2]]-[[yciB]]-[[yciC]]'' {{PubMed|9811636}}
 ** ''yciC'' {{PubMed|12426338}}
@@ Line 120: / Line 120: @@
 * '''Sigma factor:'''
-** ''[[yciA]]'':[[SigA]] {{PubMed|12426338}}
+** ''[[folE2]]'':[[SigA]] {{PubMed|12426338}}
 ** ''[[yciC]]'':[[SigA]] {{PubMed|12426338}}
 * '''Regulation:'''
-** ''[[yciA]]'': induced by zinc starvation ([[Zur]]) {{PubMed|12426338}}
+** ''[[folE2]]'': induced by zinc starvation ([[Zur]]) {{PubMed|12426338}}
 ** ''[[yciC]]'': induced by zinc starvation ([[Zur]]) {{PubMed|12426338}}
 * '''Regulatory mechanism:'''
-** ''[[yciA]]'': [[Zur]]: transcription repression in  the presence of zinc {{PubMed|12426338}}
+** ''[[folE2]]'': [[Zur]]: transcription repression in  the presence of zinc {{PubMed|12426338}}
 ** ''[[yciC]]'': [[Zur]]: transcription repression in  the presence of zinc {{PubMed|12426338}}

← Older revision		Revision as of 10:03, 17 April 2014
Line 132:		Line 132:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 448 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 15: / Line 15: @@
 |-
 |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=BSU03360 yciC]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 45 kDa, 4.399

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yciABC.html]
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 150: / Line 150: @@
 =References=
-<pubmed>12426338,9811636,18344368,22517742,18763711, </pubmed>
+<pubmed>12426338,9811636,18344368,22517742,18763711, 23406412 </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=yciC_366063_367256_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yciC_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yciC_366063_367256_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yciC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU03360]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yczL]]'', ''[[yckA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU03360 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU03360 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU03360 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU03360 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU03360 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU03360 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yciC_context.gif]]

@@ Line 20: / Line 20: @@
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1191 bp, 397 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yciB]]'', ''[[yckA]]''
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yczL]]'', ''[[yckA]]''
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12130&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''