Difference between revisions of "Sandbox"
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− | * '''Description:''' | + | * '''Description:''' arginase <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''' | ||
− | |'' | + | |''rocF'' |
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− | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' |
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no | |style="background:#ABCDEF;" align="center"| '''Essential''' || no | ||
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− | |style="background:#ABCDEF;" align="center"| '''Product''' || | + | |style="background:#ABCDEF;" align="center"| '''Product''' || arginase |
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− | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || arginine utilization |
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− | | | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 32 kDa, 4.932 |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| ''' | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 888 bp, 296 aa |
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− | |style="background:#ABCDEF;" align="center"| ''' | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[phrG]]'', ''[[rocE]]'' |
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− | |style="background:# | + | |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB16069]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' |
|- | |- | ||
− | + | |colspan="2" | '''Genetic context''' <br/> [[Image:rocF_context.gif]] | |
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− | |colspan="2" | '''Genetic context''' <br/> [[Image: | ||
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div> | <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div> | ||
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=== Basic information === | === Basic information === | ||
− | * '''Locus tag:''' | + | * '''Locus tag:''' BSU40320 |
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
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=== Database entries === | === Database entries === | ||
− | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ | + | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rocDEF.html] |
− | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10932] |
=== Additional information=== | === Additional information=== | ||
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=== Basic information/ Evolution === | === Basic information/ Evolution === | ||
− | * '''Catalyzed reaction/ biological activity:''' | + | * '''Catalyzed reaction/ biological activity:''' L-arginine + H<sub>2</sub>O = L-ornithine + urea (according to Swiss-Prot) |
− | * '''Protein family:''' | + | * '''Protein family:''' arginase family (according to Swiss-Prot) |
− | * '''Paralogous protein(s):' | + | * '''Paralogous protein(s):''' |
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=== Extended information on the protein === | === Extended information on the protein === | ||
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* '''Cofactor(s):''' | * '''Cofactor(s):''' | ||
− | * '''Effectors of protein activity:''' | + | * '''Effectors of protein activity:''' |
− | * '''Interactions:''' | + | * '''Interactions:''' |
* '''Localization:''' | * '''Localization:''' | ||
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=== Database entries === | === Database entries === | ||
− | * '''Structure:''' | + | * '''Structure:''' |
− | * '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/ | + | * '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P39138 P39138] |
− | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+ | + | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU40320] |
+ | |||
+ | * '''E.C. number:''' [http://www.expasy.org/enzyme/3.5.3.1 3.5.3.1] | ||
=== Additional information=== | === Additional information=== | ||
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=Expression and regulation= | =Expression and regulation= | ||
− | * '''Operon:''' '' | + | * '''Operon:''' ''[[rocD]]-[[rocE]]-[[rocF]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/7540694 PubMed] |
− | * '''[[Sigma factor]]:''' [[ | + | * '''[[Sigma factor]]:''' [[SigL]] [http://www.ncbi.nlm.nih.gov/sites/entrez/7540694 PubMed] |
− | * '''Regulation:''' | + | * '''Regulation:''' induced by arginine ([[RocR]], [[AhrC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7540694 PubMed], repressed by [[CodY]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed] |
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− | * '''Regulatory mechanism:''' | + | * '''Regulatory mechanism:''' [[RocR]], [[AhrC]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/7540694 PubMed], [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed] |
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* '''Additional information:''' | * '''Additional information:''' | ||
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=Biological materials = | =Biological materials = | ||
− | * '''Mutant:''' | + | * '''Mutant:''' GP655, aphA3, available in the [[Stülke]] lab |
* '''Expression vector:''' | * '''Expression vector:''' | ||
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=Labs working on this gene/protein= | =Labs working on this gene/protein= | ||
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=Your additional remarks= | =Your additional remarks= | ||
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=References= | =References= | ||
− | <pubmed> | + | <pubmed>7540694, </pubmed> |
− | # | + | # Gardan R, Rapoport G, Débarbouillé M. (1995) Expression of the rocDEF operon involved in arginine catabolism in Bacillus subtilis. ''J Mol Biol. '' '''Jun 23;249(5):''' 843-56. [http://www.ncbi.nlm.nih.gov/sites/entrez/7540694 PubMed] |
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# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed] | # Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed] |
Revision as of 12:56, 11 June 2009
- Description: arginase
Gene name | rocF |
Synonyms | |
Essential | no |
Product | arginase |
Function | arginine utilization |
MW, pI | 32 kDa, 4.932 |
Gene length, protein length | 888 bp, 296 aa |
Immediate neighbours | phrG, rocE |
Get the DNA and protein sequences (Barbe et al., 2009) | |
Genetic context This image was kindly provided by SubtiList
|
Contents
The gene
Basic information
- Locus tag: BSU40320
Phenotypes of a mutant
Database entries
- DBTBS entry: [1]
- SubtiList entry: [2]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity: L-arginine + H2O = L-ornithine + urea (according to Swiss-Prot)
- Protein family: arginase family (according to Swiss-Prot)
- Paralogous protein(s):
Extended information on the protein
- Kinetic information:
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
- Interactions:
- Localization:
Database entries
- Structure:
- Swiss prot entry: P39138
- KEGG entry: [3]
- E.C. number: 3.5.3.1
Additional information
Expression and regulation
- Regulatory mechanism: RocR, AhrC: transcription activation PubMed, CodY: transcription repression PubMed
- Additional information:
Biological materials
- Mutant: GP655, aphA3, available in the Stülke lab
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References