Difference between revisions of "Sandbox"
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− | * '''Description:''' | + | * '''Description:''' carbamoyl-phosphate transferase-arginine subunit B) <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''' | ||
− | |'' | + | |''carB'' |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''cpa '' |
|- | |- | ||
|style="background:#ABCDEF;" align="center"| '''Essential''' || no | |style="background:#ABCDEF;" align="center"| '''Essential''' || no | ||
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| '''Product''' || | + | |style="background:#ABCDEF;" align="center"| '''Product''' || carbamoyl-phosphate transferase-arginine subunit B) |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of arginine |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| ''' | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 112 kDa, 4.712 |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"|''' | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 3090 bp, 1030 aa |
|- | |- | ||
− | |style="background:# | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[carA]]'', ''[[argF]]'' |
|- | |- | ||
− | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12965]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' |
+ | |- | ||
+ | |- | ||
+ | |- | ||
+ | |colspan="2" | '''Genetic context''' <br/> [[Image:carB_context.gif]] | ||
<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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<br/><br/> | <br/><br/> | ||
− | |||
=The gene= | =The gene= | ||
=== Basic information === | === Basic information === | ||
− | * '''Locus tag:''' | + | * '''Locus tag:''' BSU11240 |
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
Line 40: | Line 43: | ||
=== Database entries === | === Database entries === | ||
− | * '''DBTBS entry:''' | + | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/argCJBD-carAB-argF.html] |
− | * '''SubtiList entry:''' | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10196] |
− | |||
− | |||
=== Additional information=== | === Additional information=== | ||
+ | =The protein= | ||
+ | |||
+ | === Basic information/ Evolution === | ||
+ | |||
+ | * '''Catalyzed reaction/ biological activity:''' 2 ATP + L-glutamine + HCO<sub>3</sub><sup>-</sup> + H<sub>2</sub>O = 2 ADP + phosphate + L-glutamate + carbamoyl phosphate (according to Swiss-Prot) | ||
+ | |||
+ | * '''Protein family:''' carB family (according to Swiss-Prot) | ||
+ | |||
+ | * '''Paralogous protein(s):''' [[PyrAB]] | ||
+ | |||
+ | === Extended information on the protein === | ||
+ | |||
+ | * '''Kinetic information:''' | ||
+ | |||
+ | * '''Domains:''' | ||
+ | |||
+ | * '''Modification:''' | ||
+ | |||
+ | * '''Cofactor(s):''' | ||
+ | |||
+ | * '''Effectors of protein activity:''' | ||
+ | |||
+ | * '''Interactions:''' | ||
+ | |||
+ | * '''Localization:''' | ||
+ | |||
+ | === Database entries === | ||
+ | |||
+ | * '''Structure:''' | ||
+ | |||
+ | * '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P18185 P18185] | ||
+ | |||
+ | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU11240] | ||
+ | |||
+ | * '''E.C. number:''' [http://www.expasy.org/enzyme/6.3.5.5 6.3.5.5] | ||
+ | |||
+ | === Additional information=== | ||
+ | |||
+ | :* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed] | ||
=Expression and regulation= | =Expression and regulation= | ||
− | * '''Operon:''' | + | * '''Operon:''' ''[[argC]]-[[argJ]]-[[argB]]-[[argD]]-[[carA]]-[[carB]]-[[argF]]'' |
− | * '''Sigma factor:''' | + | * '''[[Sigma factor]]:''' [[SigA]] |
− | * '''Regulation:''' | + | * '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed], repressed by arginine ([[AhrC]]) |
− | * '''Regulatory mechanism:''' | + | * '''Regulatory mechanism:''' [[AhrC]]: transcription repression |
− | * '''Additional information:''' | + | * '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed] |
=Biological materials = | =Biological materials = | ||
Line 69: | Line 109: | ||
* '''lacZ fusion:''' | * '''lacZ fusion:''' | ||
+ | * '''GFP fusion:''' | ||
+ | |||
+ | * '''two-hybrid system:''' | ||
− | + | * '''Antibody:''' | |
− | + | =Labs working on this gene/protein= | |
=Your additional remarks= | =Your additional remarks= | ||
Line 78: | Line 121: | ||
=References= | =References= | ||
− | <pubmed> | + | <pubmed>12107147, </pubmed> |
− | # | + | # Mäder et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed] |
+ | # Gerth et al. (2008) Clp-dependent proteolysis down-regulates central metabolic pathways in glucose-starved Bacillus subtilis. J Bacteriol 190:321-331 [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed] | ||
+ | # Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed] |
Revision as of 13:11, 8 June 2009
- Description: carbamoyl-phosphate transferase-arginine subunit B)
Gene name | carB |
Synonyms | cpa |
Essential | no |
Product | carbamoyl-phosphate transferase-arginine subunit B) |
Function | biosynthesis of arginine |
MW, pI | 112 kDa, 4.712 |
Gene length, protein length | 3090 bp, 1030 aa |
Immediate neighbours | carA, argF |
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: BSU11240
Phenotypes of a mutant
Database entries
- DBTBS entry: [1]
- SubtiList entry: [2]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity: 2 ATP + L-glutamine + HCO3- + H2O = 2 ADP + phosphate + L-glutamate + carbamoyl phosphate (according to Swiss-Prot)
- Protein family: carB family (according to Swiss-Prot)
- Paralogous protein(s): PyrAB
Extended information on the protein
- Kinetic information:
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
- Interactions:
- Localization:
Database entries
- Structure:
- Swiss prot entry: P18185
- KEGG entry: [3]
- E.C. number: 6.3.5.5
Additional information
- subject to Clp-dependent proteolysis upon glucose starvation PubMed
Expression and regulation
- Regulatory mechanism: AhrC: transcription repression
- Additional information: subject to Clp-dependent proteolysis upon glucose starvation PubMed
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
Ulrike Mäder, Georg Homuth, Christian Scharf, Knut Büttner, Rüdiger Bode, Michael Hecker
Transcriptome and proteome analysis of Bacillus subtilis gene expression modulated by amino acid availability.
J Bacteriol: 2002, 184(15);4288-95
[PubMed:12107147]
[WorldCat.org]
[DOI]
(P p)
- Mäder et al. (2002) Transcriptome and Proteome Analysis of Bacillus subtilis Gene Expression Modulated by Amino Acid Availability. J. Bacteriol 184: 1844288-4295 PubMed
- Gerth et al. (2008) Clp-dependent proteolysis down-regulates central metabolic pathways in glucose-starved Bacillus subtilis. J Bacteriol 190:321-331 PubMed
- Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed