GlpK - Revision history

Jstuelk: /* Biological materials */

2015-08-03T08:06:36Z

‎Biological materials

Jstuelk: /* Biological materials */

2014-06-11T16:57:28Z

‎Biological materials

134.76.70.252 at 14:07, 17 April 2014

2014-04-17T14:07:13Z

134.76.70.252 at 09:56, 17 April 2014

2014-04-17T09:56:53Z

134.76.38.147 at 13:17, 2 April 2014

2014-04-02T13:17:02Z

134.76.70.252 at 10:24, 7 January 2014

2014-01-07T10:24:44Z

134.76.70.252 at 15:31, 11 November 2013

2013-11-11T15:31:04Z

Jstuelk at 19:46, 18 June 2013

2013-06-18T19:46:43Z

134.76.70.252 at 12:51, 16 May 2013

2013-05-16T12:51:30Z

134.76.70.252 at 09:47, 14 May 2013

2013-05-14T09:47:25Z

← Older revision		Revision as of 08:06, 3 August 2015
Line 1:		Line 1:
−	* '''Description:''' glycerol kinase <br/><br/>	+	{{#bank: GlpK}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''glpK''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| glycerol kinase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| glycerol utilization~~
−	\|-
−	\|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=BSU09290 glpK]
−	\|-
−	~~\|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=GlpK~~ GlpK]
−	\|-
−	\|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=glpK glpK]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 54 kDa, 4.985~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1488 bp, 496 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[glpF]]'', ''[[glpD]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU09290 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU09290 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU09290 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:glpK_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=glpK_1003344_1004834_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:glpK_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU09290]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[utilization of specific carbon sources]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AbrB regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[CcpA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[GlpP regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU09290
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU09290&redirect=T BSU09290]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/glpFK.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10187]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' ATP + glycerol = ADP + sn-glycerol 3-phosphate (according to Swiss-Prot)
−
−	* '''Protein family:''' FGGY kinase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[PtsH]]-[[GlpK]]
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU09290&redirect=T BSU09290]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?pdbId=3H46 3H46] (from ''Enterococcus casseliflavus'', complex with glycerol) {{PubMed\|19102629}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P18157 P18157]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09290]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.1.30 2.7.1.30]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[glpF]]-[[glpK]]'' {{PubMed\|2127799}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=glpK_1003344_1004834_1 glpK] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|2127799}}
−
−	* '''Regulation:'''
−	** repressed by glucose (8-fold) ([[CcpA]]) {{PubMed\|12850135}}
−	** induction by glycerol ([[GlpP]]) {{PubMed\|8436953}}
−
−	* '''Regulatory mechanism:'''
−	** [[CcpA]]: transcription repression {{PubMed\|12850135}}
−	** [[GlpP]]-dependent [[RNA switch]] (transcriptional antitermination) {{PubMed\|8436953}}
−	** [[AbrB]]: transcription activation {{PubMed\|20817675}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 151 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 6111 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 263 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 571 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 1140 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:'''
−	** BKE09290 (''glpK''::''ermC'') (available at the [http://www.bgsc.org/ BGSC] and in [[Jörg Stülke]]'s lab)
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Josef Deutscher]], Paris-Grignon, France~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>1335945 9162046 11929549 7773413, 19102629 20817675</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 137: / Line 137: @@
 =Biological materials =
 * '''Mutant:'''
 * '''Expression vector:'''

@@ Line 131: / Line 131: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 151 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 6111 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''

← Older revision		Revision as of 09:56, 17 April 2014
Line 129:		Line 129:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 151 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 6111 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 60: / Line 60: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/glpFK.html]
@@ Line 98: / Line 99: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?pdbId=3H46 3H46] (from ''Enterococcus casseliflavus'', complex with glycerol) {{PubMed|19102629}}

@@ Line 17: / Line 17: @@
 |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=GlpK GlpK]
 |-
-|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/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
+|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=glpK glpK]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 54 kDa, 4.985

@@ 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=BSU09290 glpK]
 |-
-|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/GlpK GlpK]
+|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=GlpK GlpK]
 |-
 |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/carbohydrate_metabolic_pathways.html Sugar catabolism]'''

@@ Line 40: / Line 40: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 119: / Line 115: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=glpK_1003344_1004834_1 glpK] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] {{PubMed|2127799}}
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|2127799}}
 * '''Regulation:'''
@@ Line 153: / Line 149: @@
 =References=
-'''Additional publications:''' {{PubMed|20817675}}
+<pubmed>1335945 9162046 11929549 7773413, 19102629 20817675</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 32: / Line 32: @@
   <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=glpK_1003344_1004834_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:glpK_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=glpK_1003344_1004834_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:glpK_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU09290]]
 |-
 |}

@@ Line 25: / Line 25: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glpF]]'', ''[[glpD]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU09290 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU09290 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU09290 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU09290 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU09290 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU09290 DNA_with_flanks]
 |-
 |-