AckA - Revision history

Jstuelk: /* Biological materials */

2015-08-03T08:09:27Z

‎Biological materials

Jstuelk: /* Biological materials */

2015-08-03T08:09:14Z

‎Biological materials

Fabian Commichau at 09:28, 12 August 2014

2014-08-12T09:28:17Z

134.76.70.252 at 14:02, 17 April 2014

2014-04-17T14:02:36Z

Jstuelk: Reverted edits by 134.76.70.252 (talk) to last revision by Jstuelk

2014-04-17T13:57:32Z

Reverted edits by 134.76.70.252 (talk) to last revision by Jstuelk

134.76.70.252 at 13:53, 17 April 2014

2014-04-17T13:53:02Z

Jstuelk: Reverted edits by 134.76.70.252 (talk) to last revision by 134.76.38.147

2014-04-17T13:42:39Z

Reverted edits by 134.76.70.252 (talk) to last revision by 134.76.38.147

134.76.70.252 at 13:32, 17 April 2014

2014-04-17T13:32:11Z

134.76.70.252 at 09:54, 17 April 2014

2014-04-17T09:54:02Z

134.76.38.147 at 14:30, 2 April 2014

2014-04-02T14:30:53Z

← Older revision		Revision as of 08:09, 3 August 2015
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−	* '''Description:~~''' acetate kinase <br/><br/>~~	+	{{#bank: AckA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ackA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| acetate kinase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| overflow metabolism~~
−	\|-
−	\|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=BSU29470 ackA]
−	\|-
−	\|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=ackA ackA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 42 kDa, 5.191~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1185 bp, 395 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[moaB]]'', ''[[ytxK]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29470 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29470 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29470 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ackA_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=ackA_3015111_3016298_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ackA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU29470]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[ATP synthesis]]}},~~
−	~~{{SubtiWiki category\|[[carbon core metabolism]]}},~~
−	~~[[most abundant proteins]]~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CcpA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[CodY regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU29470
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU29470&redirect=T BSU29470]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ackA.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10813]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' ATP + acetate = ADP + acetyl phosphate (according to Swiss-Prot)
−
−	* '''Protein family:''' acetokinase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU29470&redirect=T BSU29470]
−
−	* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=2IIR 2IIR] (from ''Thermotoga maritima'', 54% identity, 73% similarity)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P37877 P37877]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU29470]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.2.1 2.7.2.1]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[ackA]]'' {{PubMed\|8226682}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ackA_3015111_3016298_-1 ackA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|8226682}}
−
−	* '''Regulation:'''
−	** expression activated by glucose (2.5 fold) ([[CcpA]]) {{PubMed\|8226682,12850135}}
−	** activated during growth in the presence of branched chain amino acids ([[CodY]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/16995897 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[CodY]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/16995897 PubMed]
−	** [[CcpA]]: transcription activation {{PubMed\|8226682,12850135}}
−
−	* '''Additional information:'''
−	** belongs to the 100 [[most abundant proteins]] {{PubMed\|15378759}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 3042 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 1758 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 2419 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:'''
−	GP1902 (''ackA''::''aphA3'') (available in [[Jörg Stülke]]'s lab)
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Linc Sonenshein\|Linc Sonenshein]], Tufts University, Boston, MA, USA [http://www.tufts.edu/sackler/microbiology/faculty/sonenshein/index.html Homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed>16678422 15755952</pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>8226682,9811655,15378759,11244084,16995897,12850135 8226682 9811655, 21106498 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 128: / Line 128: @@
 =Biological materials =
 * '''Mutant:'''
 * '''Expression vector:'''

@@ Line 135: / Line 135: @@
 * '''GFP fusion:'''
-* '''two-hybrid system:'''
+* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
 * '''Antibody:'''

@@ Line 122: / Line 122: @@
 * '''Additional information:'''
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
 =Biological materials =
 * '''Mutant:'''

@@ Line 122: / Line 122: @@
 * '''Additional information:'''
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
-** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 1758 {{PubMed|21395229}}
+=Biological materials =
 * '''Mutant:'''

@@ Line 124: / Line 124: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 1613 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 11040 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ackA.html]
@@ Line 91: / Line 92: @@
 === Database entries ===
 * '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=2IIR 2IIR] (from ''Thermotoga maritima'', 54% identity, 73% similarity)