PdhA - Revision history

Jstuelk: /* References */

2015-04-01T11:36:03Z

‎References

Jstuelk: /* Reviews */

2014-05-28T13:51:23Z

‎Reviews

Jstuelk at 17:03, 16 May 2014

2014-05-16T17:03:59Z

134.76.70.252 at 14:11, 17 April 2014

2014-04-17T14:11:24Z

134.76.70.252 at 09:46, 17 April 2014

2014-04-17T09:46:40Z

134.76.38.147 at 13:36, 2 April 2014

2014-04-02T13:36:39Z

Jstuelk at 13:19, 5 March 2014

2014-03-05T13:19:00Z

134.76.70.252 at 10:41, 7 January 2014

2014-01-07T10:41:13Z

134.76.70.252 at 16:10, 11 November 2013

2013-11-11T16:10:12Z

Jstuelk: /* Extended information on the protein */

2013-07-28T10:59:14Z

‎Extended information on the protein

← Older revision		Revision as of 11:36, 1 April 2015
Line 1:		Line 1:
−	* '''Description:~~''' pyruvate dehydrogenase (E1 alpha subunit), required for Z-ring assembly in a pyruvate-dependent manner<br/><br/>~~	+	{{#bank: PdhA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''pdhA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''aceA ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes {{PubMed\|22383849}}, no {{PubMed\|24825009}}~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| pyruvate dehydrogenase (E1 alpha subunit)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| links glycolysis and TCA cycle~~
−	\|-
−	\|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=BSU14580 pdhA]
−	\|-
−	\|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=PdhA PdhA]
−	\|-
−	\|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=pdhA pdhA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 41 kDa, 5.837~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1113 bp, 371 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ykyA]]'', ''[[pdhB]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU14580 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU14580 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU14580 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:pdhA_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=pdhA_1528326_1529441_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:pdhA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU14580]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[carbon core metabolism]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}},~~
−	~~[[most abundant proteins]]~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU14580
−
−	~~===Phenotypes of a mutant ===~~
−
−	* ''pdhA'' is essential according to Kobayashi ''et al''. [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
−	* the mutant grows slowly but is viable {{PubMed\|24825009}}
−	* depletion of ''[[pdhA]]'' and deletion of ''[[ezrA]]'' have a strong synthetic defect in [[cell division]] {{PubMed\|24825009}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU14580&redirect=T BSU14580]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/pdhABCD.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10207]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Pyruvate + [dihydrolipoyllysine-residue acetyltransferase] lipoyllysine = [dihydrolipoyllysine-residue acetyltransferase] S-acetyldihydrolipoyllysine + CO<sub>2</sub> (according to Swiss-Prot)
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):''' [[AcoA]], [[BkdAA]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:''' Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/6414463 PubMed]
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−	** thiamine pyrophosphate
−
−	* '''Effectors of protein activity:'''
−	** Inhibited thiamine 2-thiothiazolone diphosphate and NADH [http://www.ncbi.nlm.nih.gov/pubmed/6414463 PubMed]
−	** Low sensibility to NADPH
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[PdhA]]-[[PdhB]]-[[PdhC]]-[[PdhD]]
−
−	* '''[[Localization]]:'''
−	** colocalizes with the nucleoid (depending on the availability of pyruvate) {{PubMed\|24825009}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU14580&redirect=T BSU14580]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1W88 1W88] (E1 in complex with subunit binding domain of E2, ''Geobacillus stearothermophilus'')
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P21881 P21881]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU14580]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/1.2.4.1 1.2.4.1]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[pdhA]]-[[pdhB]]-[[pdhC]]-[[pdhD]]'' {{PubMed\|11976308}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pdhA_1528326_1529441_1 pdhA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|20081037}}
−
−	* '''Regulation:'''
−	** expression activated by glucose (3.4) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
−	** subject to negative stringent control upon amino acid limitation {{PubMed\|20081037}}
−
−	* '''Regulatory mechanism:'''
−	** stringent response: due to presence of guanine at +1 position of the transcript {{PubMed\|20081037}}
−
−	* '''Additional information:'''
−	** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed\|20525796}}
−	** belongs to the 100 [[most abundant proteins]] {{PubMed\|15378759}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 5117 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 18311 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4425 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 5452 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 7055 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:''' pGP721 (in [[pAC5]]), available in [[Stülke]] lab, pGP186 (in [[pAC7]]), available in [[Stülke]] lab
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Arthur Aronson]], Purdue University, West Lafayette, USA [http://wwwdev.gradschool.purdue.edu/PULSe/faculty.cfm?fid=5&range=0 homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 19476487 9655937 2227213 6805383 24798336 </pubmed>~~
−
−	~~==Original publications==~~
−	~~<pubmed>9352926, 20525796, 12850135 6414463 11976308 20081037 15378759 24825009</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 159: / Line 159: @@
 =References=
 ==Reviews==
-<pubmed> 19476487 9655937 2227213 6805383 </pubmed>
+<pubmed> 19476487 9655937 2227213 6805383 24798336 </pubmed>
 ==Original publications==
 <pubmed>9352926, 20525796, 12850135 6414463 11976308 20081037 15378759 24825009</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 1: / Line 1: @@
-* '''Description:''' pyruvate dehydrogenase (E1 alpha subunit)<br/><br/>
+* '''Description:''' pyruvate dehydrogenase (E1 alpha subunit), required for Z-ring assembly in a pyruvate-dependent manner<br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 8: / Line 8: @@
 |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''aceA ''
 |-
-|style="background:#ABCDEF;" align="center"| '''Essential''' || yes
+|style="background:#ABCDEF;" align="center"| '''Essential''' || yes {{PubMed|22383849}}, no {{PubMed|24825009}}
 |-
 |style="background:#ABCDEF;" align="center"| '''Product''' || pyruvate dehydrogenase (E1 alpha subunit)
@@ Line 57: / Line 57: @@
 ===Phenotypes of a mutant ===
-* ''pdhA'' is essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
+* ''pdhA'' is essential according to Kobayashi ''et al''. [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
 === Database entries ===
@@ Line 97: / Line 99: @@
 * '''[[Localization]]:'''
 === Database entries ===
@@ Line 158: / Line 161: @@
 <pubmed> 19476487 9655937 2227213 6805383 </pubmed>
 ==Original publications==
-<pubmed>9352926, 20525796, 12850135 6414463 11976308 20081037 15378759</pubmed>
+<pubmed>9352926, 20525796, 12850135 6414463 11976308 20081037 15378759 24825009</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 131: / Line 131: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 5117 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 18311 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''

@@ Line 129: / Line 129: @@
 ** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
 =Biological materials =

@@ Line 60: / Line 60: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/pdhABCD.html]
@@ Line 98: / Line 99: @@
 === Database entries ===
 * '''Structure:'''	[http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1W88 1W88] (E1 in complex with subunit binding domain of E2, ''Geobacillus stearothermophilus'')

@@ Line 43: / Line 43: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[carbon core metabolism]]}},
-{{SubtiWiki category|[[essential genes]]}}
+{{SubtiWiki category|[[essential genes]]}},
 = This gene is a member of the following [[regulons]] =
@@ Line 65: / Line 66: @@
 === Additional information===
 =The protein=
@@ Line 83: / Line 81: @@
 * '''Kinetic information:''' Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/6414463 PubMed]
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 ** thiamine pyrophosphate
@@ Line 128: / Line 126: @@
 * '''Additional information:'''
 ** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
 =Biological materials =
@@ Line 153: / Line 152: @@
 <pubmed> 19476487 9655937 2227213 6805383 </pubmed>
 ==Original publications==
-<pubmed>9352926, 20525796, 12850135 6414463 11976308 20081037 </pubmed>
+<pubmed>9352926, 20525796, 12850135 6414463 11976308 20081037 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=PdhA PdhA]
 |-
-|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=pdhA pdhA]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 41 kDa, 5.837

@@ 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=BSU14580 pdhA]
 |-
-|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/PdhA PdhA]
+|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=PdhA PdhA]
 |-
 |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]'''

← Older revision		Revision as of 10:59, 28 July 2013
Line 88:		Line 88:

	* '''Cofactor(s):'''		* '''Cofactor(s):'''
		+	** thiamine pyrophosphate

	* '''Effectors of protein activity:'''		* '''Effectors of protein activity:'''