CitA - Revision history

Jstuelk at 17:31, 11 December 2014

2014-12-11T17:31:44Z

Fabian Commichau: /* Biological materials */

2014-12-08T14:46:52Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2014-12-08T14:08:26Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2014-12-08T14:06:00Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2014-12-08T14:05:03Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2014-12-08T14:04:38Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2014-12-08T14:02:57Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2014-12-08T13:57:37Z

‎Biological materials

134.76.38.147 at 13:17, 2 April 2014

2014-04-02T13:17:44Z

134.76.70.252 at 10:25, 7 January 2014

2014-01-07T10:25:17Z

← Older revision		Revision as of 17:31, 11 December 2014
Line 1:		Line 1:
−	* '''Description:''' minor citrate synthase <br/><br/>	+	{{#bank: CitA}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''citA''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Synonyms''' \|\| ''citA1 ''~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| minor citrate synthase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| unknown~~
−	\|-
−	\|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=BSU09440 citA]
−	\|-
−	\|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=citA citA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 40 kDa, 5.778~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1098 bp, 366 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[citR]], [[yhdF]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU09440 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU09440 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU09440 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:citA_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=citA_1021057_1022157_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:citA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU09440]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[poorly characterized/ putative enzymes]]}},~~
−	~~{{SubtiWiki category\|[[sporulation proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CitR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU09440
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU09440&redirect=T BSU09440]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/citA.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10854]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Acetyl-CoA + H<sub>2</sub>O + oxaloacetate = citrate + CoA (according to Swiss-Prot)
−
−	* '''Protein family:''' citrate synthase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[MmgD]], [[CitZ]]
−
−	~~=== 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=BSU09440&redirect=T BSU09440]
−
−	* '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2c6x 2C6X]
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39119 P39119]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09440]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.3.3.1 2.3.3.1]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[citA]]-[[yhdF]]'' {{PubMed\|22383849}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=citA_1021057_1022157_1 citA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|8045898}}
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:''' [[CitR]]: transcription repression {{PubMed\|8045899}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP676 (erm), available in the [[Stülke]] lab
−	** GP1282 (''[[citA]]''::''cat''), available in [[Jörg Stülke]]'s lab
−	** GP1753 (''[[citR]] [[citA]]''::''aphA3''), the kanamycin resistance cassette can be cut out by introducing the ''cre''-rekombinase into the chromosom of ''B. subtilis'', available in [[Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−	** pGP2516 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''FLAG-tag construct:'''
−	** GP1287 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>8045899,8045898, 22383849</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 128: / Line 128: @@
 * '''Expression vector:'''
+** pGP2516 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
 * '''lacZ fusion:'''

@@ Line 125: / Line 125: @@
 ** GP676 (erm), available in the [[Stülke]] lab
 ** GP1282 (''[[citA]]''::''cat''), available in [[Jörg Stülke]]'s lab
-** GP1753 (''[[citR]] [[citA]]''::''aphA3''), available in [[Jörg Stülke]]'s lab
+** GP1753 (''[[citR]] [[citA]]''::''aphA3''), the kanamycin resistance cassette can be cut out by introducing the ''cre''-rekombinase into the chromosom of ''B. subtilis'', available in [[Jörg Stülke]]'s lab
 * '''Expression vector:'''

@@ Line 125: / Line 125: @@
 ** GP676 (erm), available in the [[Stülke]] lab
 ** GP1282 (''[[citA]]''::''cat''), available in [[Jörg Stülke]]'s lab
-** GP1753 (''[[citR'']] ''citA''::''aphA3''), available in [[Jörg Stülke]]'s lab
+** GP1753 (''[[citR]] [[citA]]''::''aphA3''), available in [[Jörg Stülke]]'s lab
 * '''Expression vector:'''

@@ Line 125: / Line 125: @@
 ** GP676 (erm), available in the [[Stülke]] lab
 ** GP1282 (''[[citA]]''::''cat''), available in [[Jörg Stülke]]'s lab
-** GP1753 (''citR'' ''citA''::''aphA3''), available in [[Jörg Stülke]]'s lab
+** GP1753 (''[[citR'']] ''citA''::''aphA3''), available in [[Jörg Stülke]]'s lab
 * '''Expression vector:'''

← Older revision		Revision as of 14:02, 8 December 2014
Line 133:		Line 133:

	* '''two-hybrid system:'''		* '''two-hybrid system:'''
		+
		+	* '''FLAG-tag construct:'''
		+	** GP1287 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

	* '''Antibody:'''		* '''Antibody:'''

@@ Line 122: / Line 122: @@
 =Biological materials =
-* '''Mutant:''' GP676 (erm), available in the [[Stülke]] lab
+* '''Mutant:'''
 * '''Expression vector:'''

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/citA.html]
@@ Line 93: / Line 94: @@
 === Database entries ===
 * '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2c6x 2C6X]

@@ 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=BSU09440 citA]
 |-
-|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/carbon_flow.html Central C-metabolism]'''
+|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=citA citA]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 40 kDa, 5.778