Difference between revisions of "Sandbox"
| Line 1: | Line 1: | ||
| − | * '''Description:''' | + | * '''Description:''' P-loop ATPase <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''' | ||
| − | |'' | + | |''ydiB'' |
|- | |- | ||
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' | ||
|- | |- | ||
| − | |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''' || P-loop ATPase |
|- | |- | ||
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown | |style="background:#ABCDEF;" align="center"|'''Function''' || unknown | ||
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.597 |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 474 bp, 158 aa |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[thiL]]'', ''[[ydiC]]'' |
|- | |- | ||
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein''' | |colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein''' | ||
|- | |- | ||
| − | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |colspan="2" | '''Genetic context''' <br/> [[Image:ydiB_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 39: | Line 39: | ||
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
| − | + | reduced growth rate [http://www.ncbi.nlm.nih.gov/sites/entrez/19246765 PubMed] | |
=== Database entries === | === Database entries === | ||
| Line 45: | Line 45: | ||
* '''DBTBS entry:''' no entry | * '''DBTBS entry:''' no entry | ||
| − | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12199] |
=== Additional information=== | === Additional information=== | ||
| Line 62: | Line 62: | ||
=== Extended information on the protein === | === Extended information on the protein === | ||
| − | * '''Kinetic information:''' | + | * '''Kinetic information:''' K(M) for ATP: 60 myM, V(max) 10 nmol/min [http://www.ncbi.nlm.nih.gov/sites/entrez/19246765 PubMed] |
* '''Domains:''' | * '''Domains:''' | ||
| Line 72: | Line 72: | ||
* '''Effectors of protein activity:''' | * '''Effectors of protein activity:''' | ||
| − | * '''Interactions:''' | + | * '''Interactions:''' dimerizes and oligomerizes [http://www.ncbi.nlm.nih.gov/sites/entrez/19246765 PubMed] |
| − | * '''Localization:''' | + | * '''Localization:''' cytoplasm with the excepton of the nucleoid region [http://www.ncbi.nlm.nih.gov/sites/entrez/19246765 PubMed] |
=== Database entries === | === Database entries === | ||
| Line 82: | Line 82: | ||
* '''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+BSU05910] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
=== Additional information=== | === Additional information=== | ||
| + | |||
| + | ATPase activity is required for ''in vivo'' function of the protein [http://www.ncbi.nlm.nih.gov/sites/entrez/19246765 PubMed] | ||
=Expression and regulation= | =Expression and regulation= | ||
| Line 92: | Line 94: | ||
* '''Operon:''' | * '''Operon:''' | ||
| − | * ''' | + | * '''Sigma factor:''' |
* '''Regulation:''' | * '''Regulation:''' | ||
| Line 121: | Line 123: | ||
# Hunt, A., Rawlins, J. P., Thomaides, H. B., and Errington, J. (2006) Functional analysis of 11 putative essential genes in Bacillus subtilis. Microbiology 152, 2895-2907. [http://www.ncbi.nlm.nih.gov/sites/entrez/17005971 PubMed] | # Hunt, A., Rawlins, J. P., Thomaides, H. B., and Errington, J. (2006) Functional analysis of 11 putative essential genes in Bacillus subtilis. Microbiology 152, 2895-2907. [http://www.ncbi.nlm.nih.gov/sites/entrez/17005971 PubMed] | ||
| + | # Karst JC, Foucher AE, Campbell TL, Di Guilmi AM, Stroebel D, Mangat CS, Brown ED, Jault JM (2009) The ATPase activity of an 'essential' ''Bacillus subtilis'' enzyme, YdiB, is required for its cellular function and is modulated by oligomerization. ''Microbiology'' '''155:''' 944-965. [http://www.ncbi.nlm.nih.gov/sites/entrez/19246765 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 21:03, 15 April 2009
- Description: P-loop ATPase
| Gene name | ydiB |
| Synonyms | |
| Essential | no |
| Product | P-loop ATPase |
| Function | unknown |
| MW, pI | 17 kDa, 4.597 |
| Gene length, protein length | 474 bp, 158 aa |
| Immediate neighbours | thiL, ydiC |
| Hier soll was neues rein | |
Genetic context 
This image was kindly provided by SubtiList
| |
Contents
The gene
Basic information
- Coordinates:
Phenotypes of a mutant
reduced growth rate PubMed
Database entries
- 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: K(M) for ATP: 60 myM, V(max) 10 nmol/min PubMed
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
- Interactions: dimerizes and oligomerizes PubMed
- Localization: cytoplasm with the excepton of the nucleoid region PubMed
Database entries
- Structure:
- Swiss prot entry:
- KEGG entry: [2]
- E.C. number:
Additional information
ATPase activity is required for in vivo function of the protein PubMed
Expression and regulation
- Operon:
- Sigma factor:
- Regulation:
- Regulatory mechanism:
- Additional information:
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
- Hunt, A., Rawlins, J. P., Thomaides, H. B., and Errington, J. (2006) Functional analysis of 11 putative essential genes in Bacillus subtilis. Microbiology 152, 2895-2907. PubMed
- Karst JC, Foucher AE, Campbell TL, Di Guilmi AM, Stroebel D, Mangat CS, Brown ED, Jault JM (2009) The ATPase activity of an 'essential' Bacillus subtilis enzyme, YdiB, is required for its cellular function and is modulated by oligomerization. Microbiology 155: 944-965. PubMed
- Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
