Difference between revisions of "Tkt"
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| − | + | * '''Description:''' transketolase <br/><br/> | |
| + | |||
| + | {| align="right" border="1" cellpadding="2" | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"|'''Gene name''' | ||
| + | |''tkt'' | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''tktA '' | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"| '''Essential''' || no | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"| '''Product''' || transketolase | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"|'''Function''' || pentose phosphate pathway | ||
| + | |- | ||
| + | |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU17890 tkt] | ||
| + | |- | ||
| + | |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/Tkt Tkt] | ||
| + | |- | ||
| + | |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]''' | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 72 kDa, 4.803 | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2001 bp, 667 aa | ||
| + | |- | ||
| + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ynzC]]'', ''[[sirA]]'' | ||
| + | |- | ||
| + | |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13673]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' | ||
| + | |- | ||
| + | |- | ||
| + | |- | ||
| + | |colspan="2" | '''Genetic context''' <br/> [[Image:tkt_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=tkt_1919861_1921864_1 Expression at a glance]'''   {{PubMed|22383849}}<br/>[[Image:tkt_expression.png|500px]] | ||
| + | |- | ||
| + | |} | ||
| + | |||
| + | __TOC__ | ||
| + | <br/><br/><br/><br/> | ||
| + | <br/><br/><br/><br/> | ||
| + | <br/><br/><br/><br/> | ||
| + | <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|[[phosphoproteins]]}} | ||
| + | |||
| + | = This gene is a member of the following [[regulons]] = | ||
| + | {{SubtiWiki regulon|[[Spo0A regulon]]}} | ||
| + | |||
| + | =The gene= | ||
| + | |||
| + | === Basic information === | ||
| + | |||
| + | * '''Locus tag:''' BSU17890 | ||
| + | |||
| + | ===Phenotypes of a mutant === | ||
| + | |||
| + | === Database entries === | ||
| + | |||
| + | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/tkt.html] | ||
| + | |||
| + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11247] | ||
| + | |||
| + | === Additional information=== | ||
| + | |||
| + | |||
| + | |||
| + | |||
| + | =The protein= | ||
| + | |||
| + | === Basic information/ Evolution === | ||
| + | |||
| + | * '''Catalyzed reaction/ biological activity:''' Sedoheptulose 7-phosphate + D-glyceraldehyde 3-phosphate = D-ribose 5-phosphate + D-xylulose 5-phosphate (according to Swiss-Prot) | ||
| + | |||
| + | * '''Protein family:''' transketolase family (according to Swiss-Prot) | ||
| + | |||
| + | * '''Paralogous protein(s):''' | ||
| + | |||
| + | === Extended information on the protein === | ||
| + | |||
| + | * '''Kinetic information:''' | ||
| + | |||
| + | * '''Domains:''' | ||
| + | |||
| + | * '''Modification:''' phosphorylated on ser/ thr/ tyr [http://www.ncbi.nlm.nih.gov/pubmed/16493705 PubMed] | ||
| + | |||
| + | * '''Cofactor(s):''' thiamine pyrophosphate | ||
| + | |||
| + | * '''Effectors of protein activity:''' | ||
| + | |||
| + | * '''[[SubtInteract|Interactions]]:''' [[Tkt]]-[[Tpi]] {{PubMed|19193632}} | ||
| + | |||
| + | * '''[[Localization]]:''' | ||
| + | |||
| + | === Database entries === | ||
| + | |||
| + | * '''Structure:''' [[http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3K95 3K95]], complex with thiamine diphosphate, from ''B. anthracis'' | ||
| + | |||
| + | * '''UniProt:''' [http://www.uniprot.org/uniprot/P45694 P45694] | ||
| + | |||
| + | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU17890] | ||
| + | |||
| + | * '''E.C. number:''' [http://www.expasy.org/enzyme/2.2.1.1 2.2.1.1] | ||
| + | |||
| + | === Additional information=== | ||
| + | |||
| + | =Expression and regulation= | ||
| + | |||
| + | * '''Operon:''' ''tkt'' {{PubMed|9068642}} | ||
| + | |||
| + | * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tkt_1919861_1921864_1 tkt] {{PubMed|22383849}} | ||
| + | |||
| + | * '''Sigma factor:''' | ||
| + | |||
| + | * '''Regulation:''' | ||
| + | ** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed] | ||
| + | |||
| + | * '''Regulatory mechanism:''' | ||
| + | ** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed] | ||
| + | |||
| + | * '''Additional information:''' | ||
| + | |||
| + | =Biological materials = | ||
| + | |||
| + | * '''Mutant:''' BS4530 (aphA3), available in [[Stülke]] lab | ||
| + | |||
| + | * '''Expression vector:''' | ||
| + | ** pGP94 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis, in [[pGP380]]), available in [[Stülke]] lab | ||
| + | ** for expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]]: pGP820, available in [[Stülke]] lab | ||
| + | |||
| + | * '''lacZ fusion:''' | ||
| + | |||
| + | * '''GFP fusion:''' | ||
| + | |||
| + | * '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab | ||
| + | |||
| + | * '''Antibody:''' | ||
| + | |||
| + | * '''FLAG-tag construct:''' GP1406 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab | ||
| + | |||
| + | =Labs working on this gene/protein= | ||
| + | |||
| + | =Your additional remarks= | ||
| + | |||
| + | =References= | ||
| + | ==Reviews== | ||
| + | <pubmed>9924800 </pubmed> | ||
| + | ==Original publications== | ||
| + | <pubmed>14651647,16493705, 19603213 9068642 16143417 15375635 19193632 </pubmed> | ||
| + | |||
| + | [[Category:Protein-coding genes]] | ||
Revision as of 20:12, 8 August 2012
- Description: transketolase
| Gene name | tkt |
| Synonyms | tktA |
| Essential | no |
| Product | transketolase |
| Function | pentose phosphate pathway |
| Gene expression levels in SubtiExpress: tkt | |
| Interactions involving this protein in SubtInteract: Tkt | |
| Metabolic function and regulation of this protein in SubtiPathways: Central C-metabolism | |
| MW, pI | 72 kDa, 4.803 |
| Gene length, protein length | 2001 bp, 667 aa |
| Immediate neighbours | ynzC, sirA |
| Get the DNA and protein sequences (Barbe et al., 2009) | |
Genetic context 
This image was kindly provided by SubtiList
| |
Expression at a glance PubMed
| |
Contents
Categories containing this gene/protein
carbon core metabolism, phosphoproteins
This gene is a member of the following regulons
The gene
Basic information
- Locus tag: BSU17890
Phenotypes of a mutant
Database entries
- DBTBS entry: [1]
- SubtiList entry: [2]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity: Sedoheptulose 7-phosphate + D-glyceraldehyde 3-phosphate = D-ribose 5-phosphate + D-xylulose 5-phosphate (according to Swiss-Prot)
- Protein family: transketolase family (according to Swiss-Prot)
- Paralogous protein(s):
Extended information on the protein
- Kinetic information:
- Domains:
- Modification: phosphorylated on ser/ thr/ tyr PubMed
- Cofactor(s): thiamine pyrophosphate
- Effectors of protein activity:
Database entries
- Structure: [3K95], complex with thiamine diphosphate, from B. anthracis
- UniProt: P45694
- KEGG entry: [3]
- E.C. number: 2.2.1.1
Additional information
Expression and regulation
- Operon: tkt PubMed
- Sigma factor:
- Additional information:
Biological materials
- Mutant: BS4530 (aphA3), available in Stülke lab
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Stülke lab
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
Reviews
G Schenk, R G Duggleby, P F Nixon
Properties and functions of the thiamin diphosphate dependent enzyme transketolase.
Int J Biochem Cell Biol: 1998, 30(12);1297-318
[PubMed:9924800]
[WorldCat.org]
[DOI]
(P p)
Original publications
Lin Wu, Zhimin Li, Qin Ye
Enhanced D-ribose biosynthesis in batch culture of a transketolase-deficient Bacillus subtilis strain by citrate.
J Ind Microbiol Biotechnol: 2009, 36(10);1289-96
[PubMed:19603213]
[WorldCat.org]
[DOI]
(I p)
Fabian M Commichau, Fabian M Rothe, Christina Herzberg, Eva Wagner, Daniel Hellwig, Martin Lehnik-Habrink, Elke Hammer, Uwe Völker, Jörg Stülke
Novel activities of glycolytic enzymes in Bacillus subtilis: interactions with essential proteins involved in mRNA processing.
Mol Cell Proteomics: 2009, 8(6);1350-60
[PubMed:19193632]
[WorldCat.org]
[DOI]
(I p)
Alain Lévine, Françoise Vannier, Cédric Absalon, Lauriane Kuhn, Peter Jackson, Elaine Scrivener, Valérie Labas, Joëlle Vinh, Patrick Courtney, Jérôme Garin, Simone J Séror
Analysis of the dynamic Bacillus subtilis Ser/Thr/Tyr phosphoproteome implicated in a wide variety of cellular processes.
Proteomics: 2006, 6(7);2157-73
[PubMed:16493705]
[WorldCat.org]
[DOI]
(P p)
Yong-Cheol Park, Jin-Ho Choi, George N Bennett, Jin-Ho Seo
Characterization of D-ribose biosynthesis in Bacillus subtilis JY200 deficient in transketolase gene.
J Biotechnol: 2006, 121(4);508-16
[PubMed:16143417]
[WorldCat.org]
[DOI]
(P p)
Yong-Cheol Park, Sung-Gun Kim, Kyungmoon Park, Kelvin H Lee, Jin-Ho Seo
Fed-batch production of D-ribose from sugar mixtures by transketolase-deficient Bacillus subtilis SPK1.
Appl Microbiol Biotechnol: 2004, 66(3);297-302
[PubMed:15375635]
[WorldCat.org]
[DOI]
(P p)
Virginie Molle, Masaya Fujita, Shane T Jensen, Patrick Eichenberger, José E González-Pastor, Jun S Liu, Richard Losick
The Spo0A regulon of Bacillus subtilis.
Mol Microbiol: 2003, 50(5);1683-701
[PubMed:14651647]
[WorldCat.org]
[DOI]
(P p)
T Schiött, C von Wachenfeldt, L Hederstedt
Identification and characterization of the ccdA gene, required for cytochrome c synthesis in Bacillus subtilis.
J Bacteriol: 1997, 179(6);1962-73
[PubMed:9068642]
[WorldCat.org]
[DOI]
(P p)
