CysK - Revision history

134.76.70.252 at 14:05, 17 April 2014

2014-04-17T14:05:13Z

134.76.70.252 at 09:47, 17 April 2014

2014-04-17T09:47:27Z

134.76.38.147 at 12:47, 2 April 2014

2014-04-02T12:47:32Z

Jstuelk at 16:23, 5 March 2014

2014-03-05T16:23:38Z

134.76.70.252 at 09:59, 7 January 2014

2014-01-07T09:59:10Z

134.76.70.252 at 14:58, 11 November 2013

2013-11-11T14:58:42Z

134.76.70.252 at 12:20, 16 May 2013

2013-05-16T12:20:04Z

134.76.70.252 at 09:12, 14 May 2013

2013-05-14T09:12:58Z

134.76.70.252 at 11:56, 13 May 2013

2013-05-13T11:56:32Z

134.76.70.252 at 12:18, 19 September 2012

2012-09-19T12:18:48Z

← Older revision		Revision as of 14:05, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' [[trigger enzymes\|trigger enzyme]]: cysteine synthetase A and control of [[CymR]] activity<br/><br/>~~	+	{{#bank: CysK}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''cysK''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[trigger enzymes\|trigger enzyme]]: cysteine synthetase A~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of cysteine, control of [[CymR]] activity~~
−	\|-
−	\|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=BSU00730 cysK]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=CysK CysK]
−	\|-
−	\|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=cysK cysK]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 32 kDa, 5.492~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 924 bp, 308 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yacD]]'', ''[[pabB]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00730 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:cysK_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=cysK_81771_82697_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:cysK_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00730]]
−	\|-
−	\|}
−
−	~~__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]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[trigger enzyme]]}},~~
−	~~[[most abundant proteins]]~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CymR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[Spx regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU00730
−
−	~~===Phenotypes of a mutant ===~~
−	~~constitutive expression of the ''[[cysH]]-[[cysP]]-[[sat]]-[[cysC]]-[[ylnD]]-[[ylnE]]-[[ylnF]]'' operon, auxotrophic for cysteine~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU00730&redirect=T BSU00730]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cysK.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10136]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' O(3)-acetyl-L-serine + H<sub>2</sub>S = L-cysteine + acetate (according to Swiss-Prot)
−
−	* '''Protein family:''' cysteine synthase/cystathionine beta-synthase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[CymR]]-[[CysK]], the complex is formed in the presence of cysteine, and results in DNA binding and repression of genes of cysteine biosynthesis [http://www.ncbi.nlm.nih.gov/sites/entrez/18974048 PubMed]
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU00730&redirect=T BSU00730]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1Y7L 1Y7L] (from ''Haemophilus influenzae'', 39% identity, 52% similarity) {{PubMed\|15838047}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P37887 P37887]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00730]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.5.1.47 2.5.1.47]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[cysK]]'' [http://www.ncbi.nlm.nih.gov/pubmed/9084182 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cysK_81771_82697_1 cysK] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/11445163 PubMed]
−
−	* '''Regulation:'''
−	** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
−	** repressed in the presence of cysteine ([[CymR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/16513748 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[CymR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/16513748 PubMed]
−	** [[Spx]]: transcription activation {{PubMed\|12642660,19575568}}
−
−	* '''Additional information:'''
−	** belongs to the 100 [[most abundant proteins]] {{PubMed\|15378759}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 2939 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 10887 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** 1A834 ( ''cysK''::''kan''), {{PubMed\| }}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A834&Search=1A834 BGSC]
−	** 1A801 ( ''cysK''::''spec''), {{PubMed\|11445163}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A801&Search=1A801 BGSC]
−	** 1A803 ( ''cysK''::''spec''), {{PubMed\|11445163}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A803&Search=1A803 BGSC]
−	** 1A946 ( ''cysK''::''spec''), {{PubMed\|17056751}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A946&Search=1A946 BGSC]
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Isabelle Martin-Verstraete]], Institute Pasteur, Paris, France~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>16513748,17056751,18974048,16267287, 12642660,11445163 ,12107147 ,15838047 9084182 15378759</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 127: / Line 127: @@
 * '''Additional information:'''
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
 =Biological materials =

@@ Line 61: / Line 61: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cysK.html]
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1Y7L 1Y7L] (from ''Haemophilus influenzae'', 39% identity, 52% similarity) {{PubMed|15838047}}

@@ Line 39: / Line 39: @@
 <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]]}},
 {{SubtiWiki category|[[transcription factors and their control]]}},
-{{SubtiWiki category|[[trigger enzyme]]}}
+{{SubtiWiki category|[[trigger enzyme]]}},
 = This gene is a member of the following [[regulons]] =
@@ Line 70: / Line 67: @@
 === Additional information===
 =The protein=
@@ Line 88: / Line 82: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 119: / Line 113: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cysK_81771_82697_1 cysK] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/11445163 PubMed]
+* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/11445163 PubMed]
 * '''Regulation:'''
@@ Line 130: / Line 124: @@
 * '''Additional information:'''
 =Biological materials =
@@ Line 157: / Line 152: @@
 =References=
-<pubmed>16513748,17056751,18974048,16267287, 12642660,11445163 ,12107147 ,15838047 9084182 </pubmed>
+<pubmed>16513748,17056751,18974048,16267287, 12642660,11445163 ,12107147 ,15838047 9084182 15378759</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 18: / Line 18: @@
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=CysK CysK]
 |-
-|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/cys_meth_and_sulfate_assimilation.html Cys, Met & Sulfate assimilation]'''
+|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=cysK cysK]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 32 kDa, 5.492

@@ 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=BSU00730 cysK]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/CysK CysK]
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=CysK CysK]
 |-
 |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/cys_meth_and_sulfate_assimilation.html Cys, Met & Sulfate assimilation]'''

@@ Line 31: / Line 31: @@
   <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=cysK_81771_82697_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:cysK_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cysK_81771_82697_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:cysK_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00730]]
 |-
 |}

@@ Line 26: / Line 26: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yacD]]'', ''[[pabB]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00730 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00730 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:cysK_context.gif]]

@@ Line 137: / Line 137: @@
 ** 1A801 ( ''cysK''::''spec''), {{PubMed|11445163}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A801&Search=1A801 BGSC]
 ** 1A803 ( ''cysK''::''spec''), {{PubMed|11445163}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A803&Search=1A803 BGSC]
 * '''Expression vector:'''