Difference between revisions of "ThiU"
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− | * '''Description:''' | + | * '''Description:''' thiamine [[ABC transporter]] (binding protein) <br/><br/> |
{| align="right" border="1" cellpadding="2" | {| align="right" border="1" cellpadding="2" | ||
|- | |- | ||
|style="background:#ABCDEF;" align="center"|'''Gene name''' | |style="background:#ABCDEF;" align="center"|'''Gene name''' | ||
− | |'' | + | |''thiU '' |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykoF'' |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| '''Essential''' || | + | |style="background:#ABCDEF;" align="center"| '''Essential''' || no |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| '''Product''' || | + | |style="background:#ABCDEF;" align="center"| '''Product''' || thiamine [[ABC transporter]] (binding protein) |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || thiamine uptake |
+ | |- | ||
+ | |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=BSU13240 thiU] | ||
+ | |- | ||
+ | |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=ThiU ThiU] | ||
+ | |- | ||
+ | |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=thiU thiU]''' | ||
|- | |- | ||
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 6.046 | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 6.046 | ||
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 600 bp, 200 aa | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 600 bp, 200 aa | ||
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[thiV]]'', ''[[ykoG]]'' |
|- | |- | ||
− | |style="background:#FAF8CC;" align="center"|'''[http:// | + | |style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13240 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13240 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13240 DNA_with_flanks] |
− | |||
|- | |- | ||
|colspan="2" | '''Genetic context''' <br/> [[Image:ykoF_context.gif]] | |colspan="2" | '''Genetic context''' <br/> [[Image:ykoF_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=thiU_1391040_1391642_-1 Expression at a glance]'''   {{PubMed|22383849}}<br/>[[Image:thiU_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13240]] | ||
|- | |- | ||
|} | |} | ||
__TOC__ | __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/><br/><br/> | ||
+ | |||
+ | = [[Categories]] containing this gene/protein = | ||
+ | {{SubtiWiki category|[[ABC transporters]]}}, | ||
+ | {{SubtiWiki category|[[biosynthesis of cofactors]]}}, | ||
+ | {{SubtiWiki category|[[membrane proteins]]}} | ||
+ | |||
+ | = This gene is a member of the following [[regulons]] = | ||
+ | {{SubtiWiki regulon|[[Thi-box]]}} | ||
=The gene= | =The gene= | ||
Line 35: | Line 57: | ||
=== Basic information === | === Basic information === | ||
− | * ''' | + | * '''Locus tag:''' BSU13240 |
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
=== Database entries === | === Database entries === | ||
+ | * '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13240&redirect=T BSU13240] | ||
− | * '''DBTBS entry:''' | + | * '''DBTBS entry:''' no entry |
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13251] | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13251] | ||
=== Additional information=== | === Additional information=== | ||
+ | |||
+ | |||
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* '''Effectors of protein activity:''' | * '''Effectors of protein activity:''' | ||
− | * '''Interactions:''' | + | * '''[[SubtInteract|Interactions]]:''' |
+ | ** [[ThiW]]-([[ThiV]]-[[ThiX]])-[[ThiU]] {{PubMed|16291685}} | ||
− | * '''Localization:''' | + | * '''[[Localization]]:''' membrane associated (via [[ThiV]]-[[ThiX]]) {{PubMed|16291685}} |
=== Database entries === | === Database entries === | ||
+ | * '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13240&redirect=T BSU13240] | ||
− | * '''Structure:''' | + | * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1SBR 1SBR] (complex with thiamine), [http://www.rcsb.org/pdb/explore.do?structureId=1S99 1S99] |
− | * ''' | + | * '''UniProt:''' [http://www.uniprot.org/uniprot/O34911 O34911] |
− | * '''KEGG entry:''' | + | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13240] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
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=Expression and regulation= | =Expression and regulation= | ||
+ | * '''Operon:''' ''[[thiU]]-[[thiV]]-[[thiW]]-[[thiX]]'' {{PubMed|16291685}} | ||
− | * ''' | + | * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=thiU_1391040_1391642_-1 thiU] {{PubMed|22383849}} |
* '''Sigma factor:''' | * '''Sigma factor:''' | ||
* '''Regulation:''' | * '''Regulation:''' | ||
+ | ** repressed by thiamine ([[Thi-box]]) {{PubMed|12376536}} | ||
* '''Regulatory mechanism:''' | * '''Regulatory mechanism:''' | ||
+ | ** [[Thi-box]]: [[RNA switch]] {{PubMed|12376536}} | ||
− | * '''Additional information:''' | + | * '''Additional information:''' |
+ | ** number of protein molecules per cell (minimal medium with glucose and ammonium): 257 {{PubMed|24696501}} | ||
+ | ** number of protein molecules per cell (complex medium with amino acids, without glucose): 745 {{PubMed|24696501}} | ||
+ | ** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 1463 {{PubMed|21395229}} | ||
+ | ** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 433 {{PubMed|21395229}} | ||
+ | ** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 540 {{PubMed|21395229}} | ||
=Biological materials = | =Biological materials = | ||
− | |||
* '''Mutant:''' | * '''Mutant:''' | ||
Line 118: | Line 152: | ||
=References= | =References= | ||
− | + | <pubmed>16291685,12376536 ,15451668, </pubmed> | |
+ | |||
+ | [[Category:Protein-coding genes]] |
Latest revision as of 14:18, 17 April 2014
- Description: thiamine ABC transporter (binding protein)
Gene name | thiU |
Synonyms | ykoF |
Essential | no |
Product | thiamine ABC transporter (binding protein) |
Function | thiamine uptake |
Gene expression levels in SubtiExpress: thiU | |
Interactions involving this protein in SubtInteract: ThiU | |
Metabolic function and regulation of this protein in SubtiPathways: thiU | |
MW, pI | 21 kDa, 6.046 |
Gene length, protein length | 600 bp, 200 aa |
Immediate neighbours | thiV, ykoG |
Sequences | Protein DNA DNA_with_flanks |
Genetic context This image was kindly provided by SubtiList
| |
Expression at a glance PubMed |
Contents
Categories containing this gene/protein
ABC transporters, biosynthesis of cofactors, membrane proteins
This gene is a member of the following regulons
The gene
Basic information
- Locus tag: BSU13240
Phenotypes of a mutant
Database entries
- BsubCyc: BSU13240
- DBTBS entry: no entry
- SubtiList entry: [1]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity:
- Protein family:
- Paralogous protein(s):
Extended information on the protein
- Kinetic information:
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
- Localization: membrane associated (via ThiV-ThiX) PubMed
Database entries
- BsubCyc: BSU13240
- UniProt: O34911
- KEGG entry: [2]
- E.C. number:
Additional information
Expression and regulation
- Sigma factor:
- Regulatory mechanism:
- Additional information:
- number of protein molecules per cell (minimal medium with glucose and ammonium): 257 PubMed
- number of protein molecules per cell (complex medium with amino acids, without glucose): 745 PubMed
- number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 1463 PubMed
- number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 433 PubMed
- number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 540 PubMed
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
Ghislain Schyns, Sébastien Potot, Yi Geng, Teresa M Barbosa, Adriano Henriques, John B Perkins
Isolation and characterization of new thiamine-deregulated mutants of Bacillus subtilis.
J Bacteriol: 2005, 187(23);8127-36
[PubMed:16291685]
[WorldCat.org]
[DOI]
(P p)
Yancho Devedjiev, Yogesh Surendranath, Urszula Derewenda, Alexandra Gabrys, David R Cooper, Rong-guang Zhang, Lour Lezondra, Andrzej Joachimiak, Zygmunt S Derewenda
The structure and ligand binding properties of the B. subtilis YkoF gene product, a member of a novel family of thiamin/HMP-binding proteins.
J Mol Biol: 2004, 343(2);395-406
[PubMed:15451668]
[WorldCat.org]
[DOI]
(P p)
Dmitry A Rodionov, Alexey G Vitreschak, Andrey A Mironov, Mikhail S Gelfand
Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms.
J Biol Chem: 2002, 277(50);48949-59
[PubMed:12376536]
[WorldCat.org]
[DOI]
(P p)