Difference between revisions of "Sandbox"
| Line 1: | Line 1: | ||
| − | * '''Description:''' | + | * '''Description:''' two-component response regulator, regulation of phosphate metabolism <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''' | ||
| − | |'' | + | |''phoP'' |
|- | |- | ||
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' | ||
| Line 10: | Line 10: | ||
|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''' || two-component response regulator |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of phosphate metabolism <br/>(phoA, phoB, phoD, resABCDE, tagAB, tagDEF, tuaA-H) |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 5.068 |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 720 bp, 240 aa |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[phoR]]'', ''[[mdh]]'' |
|- | |- | ||
| − | |style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ | + | |style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/phoP_nucleotide.txt Gene sequence (+200bp) ]''' |
| − | |style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ | + | |style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/phoP_protein.txt Protein sequence]''' |
|- | |- | ||
| − | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors |
| + | |- | ||
| + | |colspan="2" | '''Genetic context''' <br/> [[Image:phoP_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> | ||
|- | |- | ||
| Line 30: | Line 32: | ||
__TOC__ | __TOC__ | ||
| − | <br/><br/> | + | <br/><br/><br/><br/> |
=The gene= | =The gene= | ||
| Line 42: | Line 44: | ||
=== Database entries === | === Database entries === | ||
| − | * '''DBTBS entry:''' | + | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/phoPR.html] |
| − | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10363] |
=== Additional information=== | === Additional information=== | ||
| Line 58: | Line 60: | ||
* '''Paralogous protein(s):''' | * '''Paralogous protein(s):''' | ||
| + | |||
| + | === Genes controlled by PhoP === | ||
| + | |||
| + | * '''Activation by PhoP:''' ''[[phoP]]-[[phoR]]'' | ||
| + | |||
| + | * '''Repression by PhoP:''' | ||
=== Extended information on the protein === | === Extended information on the protein === | ||
| Line 65: | Line 73: | ||
* '''Domains:''' | * '''Domains:''' | ||
| − | * '''Modification:''' | + | * '''Modification:''' phosphorylation by [[PhoR]] under conditions of phosphate limitation (stimulates DNA-binding activity) |
* '''Cofactor(s):''' | * '''Cofactor(s):''' | ||
| Line 71: | Line 79: | ||
* '''Effectors of protein activity:''' | * '''Effectors of protein activity:''' | ||
| − | * '''Interactions:''' | + | * '''Interactions:''' [[PhoP]]-[[PhoR]] |
* '''Localization:''' | * '''Localization:''' | ||
| Line 81: | Line 89: | ||
* '''Swiss prot entry:''' | * '''Swiss prot entry:''' | ||
| − | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+ | + | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU29110] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
| Line 89: | Line 97: | ||
=Expression and regulation= | =Expression and regulation= | ||
| − | * '''Operon:''' | + | * '''Operon:''' ''[[phoP]]-[[phoR]]'' |
| − | * '''Sigma factor:''' | + | * '''Sigma factor:''' [[SigA]] |
| − | * '''Regulation:''' repressed by glucose (4. | + | * '''Regulation:''' repressed by glucose (4.3-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed], induced by phosphate limitation ([[PhoP]]), carbon catabolite repression ([[CcpA]]) |
| − | * '''Regulatory mechanism:''' [[CcpA]]: transcription repression, [[CcpA]]: transcription repression | + | * '''Regulatory mechanism:''' [[CcpA]]: transcription repression, [[PhoP]]: transcription activation, [[CcpA]]: transcription repression |
* '''Additional information:''' | * '''Additional information:''' | ||
| Line 120: | Line 128: | ||
# Blencke et al. (2003) Transcriptional profiling of gene expression in response to glucose in ''Bacillus subtilis'': regulation of the central metabolic pathways. ''Metab Eng.'' '''5:''' 133-149 [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] | # Blencke et al. (2003) Transcriptional profiling of gene expression in response to glucose in ''Bacillus subtilis'': regulation of the central metabolic pathways. ''Metab Eng.'' '''5:''' 133-149 [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] | ||
| − | |||
# 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 10:02, 6 April 2009
- Description: two-component response regulator, regulation of phosphate metabolism
| Gene name | phoP |
| Synonyms | |
| Essential | no |
| Product | two-component response regulator |
| Function | regulation of phosphate metabolism (phoA, phoB, phoD, resABCDE, tagAB, tagDEF, tuaA-H) |
| MW, pI | 27 kDa, 5.068 |
| Gene length, protein length | 720 bp, 240 aa |
| Immediate neighbours | phoR, mdh |
| Gene sequence (+200bp) | Protein sequence |
| Caution: The sequence for this gene in SubtiList contains errors | |
Genetic context 
This image was kindly provided by SubtiList
| |
Contents
The gene
Basic information
- Coordinates:
Phenotypes of a mutant
Database entries
- DBTBS entry: [1]
- SubtiList entry: [2]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity:
- Protein family:
- Paralogous protein(s):
Genes controlled by PhoP
- Repression by PhoP:
Extended information on the protein
- Kinetic information:
- Domains:
- Modification: phosphorylation by PhoR under conditions of phosphate limitation (stimulates DNA-binding activity)
- Cofactor(s):
- Effectors of protein activity:
- Localization:
Database entries
- Structure:
- Swiss prot entry:
- KEGG entry: [3]
- E.C. number:
Additional information
Expression and regulation
- Sigma factor: SigA
- Regulation: repressed by glucose (4.3-fold) (CcpA) PubMed, induced by phosphate limitation (PhoP), carbon catabolite repression (CcpA)
- Regulatory mechanism: CcpA: transcription repression, PhoP: transcription activation, CcpA: transcription repression
- Additional information:
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
