SdhB - Revision history

134.76.70.252 at 09:56, 17 April 2014

2014-04-17T09:56:21Z

134.76.38.147 at 14:26, 2 April 2014

2014-04-02T14:26:37Z

134.76.70.252 at 11:23, 7 January 2014

2014-01-07T11:23:51Z

134.76.70.252 at 09:04, 12 November 2013

2013-11-12T09:04:00Z

Jstuelk: /* Biological materials */

2013-08-13T14:11:38Z

‎Biological materials

Aklewing: /* Biological materials */

2013-08-13T12:09:16Z

‎Biological materials

Jstuelk: /* References */

2013-08-12T09:40:30Z

‎References

Jstuelk at 18:04, 11 August 2013

2013-08-11T18:04:03Z

134.76.70.252 at 14:12, 16 May 2013

2013-05-16T14:12:20Z

134.76.70.252 at 10:56, 14 May 2013

2013-05-14T10:56:09Z

← Older revision		Revision as of 09:56, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' succinate dehydrogenase <br/><br/>~~	+	{{#bank: SdhB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''sdhB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| succinate dehydrogenase (iron-sulfur protein)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| 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=BSU28430 sdhB]
−	\|-
−	\|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=SdhB SdhB]
−	\|-
−	\|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=sdhB sdhB]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 28 kDa, 7.989~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 759 bp, 253 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ysmA]], [[sdhA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28430 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28430 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28430 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:sdhB_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=sdhB_2905571_2906332_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:sdhB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28430]]
−	\|-
−	\|}
−
−	~~__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\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[FsrA regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU28430
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28430&redirect=T BSU28430]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sdhCAB.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10353]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Succinate + acceptor = fumarate + reduced acceptor (according to Swiss-Prot)
−
−	* '''Protein family:''' succinate dehydrogenase/fumarate reductase iron-sulfur protein family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):''' Fe
−
−	* '''Effectors of protein activity:'''
−	** Inhibited by 2-(n-Heptyl)-4-hydroxy-quinoline N-oxide [http://www.ncbi.nlm.nih.gov/pubmed/3910107 PubMed]
−	** Activated by Cytochrome b558 [http://www.ncbi.nlm.nih.gov/pubmed/6799760 PubMed]
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[SdhA]]-[[SdhB]], [[SdhB]]-[[SdhC]] (as part of the [[SdhC]]-[[SdhB]]-[[SdhA]] complex)
−	** part of a [[Respiratory complexes and supercomplexes\|respiratory supercomplex]] {{PubMed\|23880299}}
−
−	* '''[[Localization]]:'''
−	** attached to the membrane [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28430&redirect=T BSU28430]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1NEK 1NEK] (''E. coli'')
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P08066 P08066]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU28430]
−
−	* '''E.C. number:'''EC 1.3.99.1
−
−	~~=== Additional information===~~
−	* This enzyme is a trimer membrane-bound [http://www.ncbi.nlm.nih.gov/pubmed/3910107 PubMed] [http://www.ncbi.nlm.nih.gov/pubmed/6799760 PubMed]
−	** One subunit is bound to citochrome b558, and this subunit is the one bound to the cytosolic side of the membrane [http://www.ncbi.nlm.nih.gov/pubmed/3910107 PubMed] [http://www.ncbi.nlm.nih.gov/pubmed/6799760 PubMed]
−	** Another subunit is the flavoprotein one, required for FAD usage [http://www.ncbi.nlm.nih.gov/pubmed/3910107 PubMed] [http://www.ncbi.nlm.nih.gov/pubmed/6799760 PubMed]
−	** The other subunit has an iron-sulphur domain necessary for the catalytic activity [http://www.ncbi.nlm.nih.gov/pubmed/3910107 PubMed] [http://www.ncbi.nlm.nih.gov/pubmed/6799760 PubMed]
−	* extensive information on the structure and enzymatic properties of succinate dehydrogenase can be found at [http://www.proteopedia.org/wiki/index.php/Succinate_Dehydrogenase Proteopedia]
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[sdhC]]''-''[[sdhA]]''-''[[sdhB]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/3036777 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sdhB_2905571_2906332_-1 sdhB] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2495271 PubMed]
−
−	* '''Regulation:''' constitutive
−	** part of the iron sparing response ([[FsrA]]) {{PubMed\|22389480}}
−
−	* '''Regulatory mechanism:'''
−	** [[FsrA]]: translation inhibition {{PubMed\|22389480}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP792 (''[[sdhC]]-[[sdhA]]-[[sdhB]]''::''phleo''), available in [[Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:''' GP1436 (spc, based on [[pGP1870]]), available in the [[Stülke]] lab
−
−	* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab
−
−	* '''Antibody:'''
−
−	* '''FLAG-tag construct:''' GP1426 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~== Reviews ==~~
−	~~<pubmed> 11803018 </pubmed>~~
−	~~== Original publications ==~~
−	~~<pubmed>1707123,6401289,1324713,3036777,2495271,3027051,7748886,2837411,12560550, 3910107 6799760 22389480 23880299</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sdhCAB.html]
@@ Line 99: / Line 100: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1NEK 1NEK] (''E. coli'')

@@ 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=SdhB SdhB]
 |-
-|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=sdhB sdhB]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 7.989

@@ 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=BSU28430 sdhB]
 |-
-|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/SdhB SdhB]
+|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=SdhB SdhB]
 |-
 |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]'''

@@ Line 134: / Line 134: @@
 * '''Mutant:'''
-** GP792 (''sdhCAB''::''phleo''), available in [[Jörg Stülke]]'s lab
+** GP792 (''[[sdhC]]-[[sdhA]]-[[sdhB]]''::''phleo''), available in [[Jörg Stülke]]'s lab
 * '''Expression vector:'''

← Older revision		Revision as of 12:09, 13 August 2013
Line 134:		Line 134:

	* '''Mutant:'''		* '''Mutant:'''
		+	** GP792 (''sdhCAB''::''phleo''), available in [[Jörg Stülke]]'s lab

	* '''Expression vector:'''		* '''Expression vector:'''

@@ Line 152: / Line 152: @@
 =References=
 <pubmed>1707123,6401289,1324713,3036777,2495271,3027051,7748886,2837411,12560550,  3910107 6799760 22389480 23880299</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 39: / Line 39: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 97: / Line 93: @@
 * '''[[SubtInteract|Interactions]]:'''
 ** [[SdhA]]-[[SdhB]],  [[SdhB]]-[[SdhC]] (as part of the [[SdhC]]-[[SdhB]]-[[SdhA]] complex)
-* '''[[Localization]]:''' attached to the membrane [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
+* '''[[Localization]]:'''
 === Database entries ===
@@ Line 123: / Line 121: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sdhB_2905571_2906332_-1 sdhB] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2495271 PubMed]
+* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2495271 PubMed]
 * '''Regulation:''' constitutive
@@ Line 154: / Line 152: @@
 =References=
-<pubmed>1707123,6401289,1324713,3036777,2495271,3027051,7748886,2837411,12560550,  3910107 6799760 22389480</pubmed>
+<pubmed>1707123,6401289,1324713,3036777,2495271,3027051,7748886,2837411,12560550,  3910107 6799760 22389480 23880299</pubmed>
 [[Category:Protein-coding genes]]

@@ 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=sdhB_2905571_2906332_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:sdhB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sdhB_2905571_2906332_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:sdhB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28430]]
 |-
 |}

@@ Line 26: / Line 26: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ysmA]], [[sdhA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28430 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28430 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28430 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28430 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28430 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28430 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:sdhB_context.gif]]