Difference between revisions of "Sandbox"
| Line 1: | Line 1: | ||
| − | * '''Description:''' | + | * '''Description:''' penicillin-binding proteins 1A/1B <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''' | ||
| − | |'' | + | |''ponA'' |
|- | |- | ||
|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''' || penicillin-binding proteins 1A/1B |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || bifunctional glucosyltransferase/ transpeptidase |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 99 kDa, 4.752 |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 2742 bp, 914 aa |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[recU]]'', ''[[ypoC]]'' |
|- | |- | ||
| − | |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS: | + | |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14148]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' |
|- | |- | ||
| − | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |colspan="2" | '''Genetic context''' <br/> [[Image:ponA_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 38: | Line 38: | ||
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
| + | |||
| + | prevents bulging of the cells when grown at low Mg(2+) concentrations, suppresses the lethal effect of a ''[[mreB]]'' mutation [http://www.ncbi.nlm.nih.gov/sites/entrez/19192185 PubMed] | ||
=== Database entries === | === Database entries === | ||
| − | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ | + | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/recU-ponA.html] |
| − | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10954] |
=== Additional information=== | === Additional information=== | ||
| Line 72: | Line 74: | ||
* '''Interactions:''' | * '''Interactions:''' | ||
| − | * '''Localization:''' Cytoplasm | + | * '''Localization:''' Cytoplasm membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed] , localizes to the spore septum during sporulation [http://www.ncbi.nlm.nih.gov/sites/entrez/15758244 Link to a summary] |
=== Database entries === | === Database entries === | ||
| Line 80: | 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+BSU22320] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
| Line 92: | Line 94: | ||
* '''[[Sigma factor]]:''' | * '''[[Sigma factor]]:''' | ||
| − | * '''Regulation:''' | + | * '''Regulation:''' constitutive during vegetative growth [http://www.ncbi.nlm.nih.gov/sites/entrez/15758244 Link to a summary] |
* '''Regulatory mechanism:''' | * '''Regulatory mechanism:''' | ||
| Line 108: | Line 110: | ||
* '''GFP fusion:''' | * '''GFP fusion:''' | ||
| − | * '''two-hybrid system:''' | + | * '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jeff Errington]] lab |
* '''Antibody:''' | * '''Antibody:''' | ||
=Labs working on this gene/protein= | =Labs working on this gene/protein= | ||
| + | |||
| + | [[Jeff Errington]], Newcastle University, UK [http://www.ncl.ac.uk/camb/staff/profile/jeff.errington homepage] | ||
=Your additional remarks= | =Your additional remarks= | ||
| Line 118: | Line 122: | ||
=References= | =References= | ||
| + | # Hahne et al. (2008) From complementarity to comprehensiveness - targeting the membrane proteome of growing ''Bacillus subtilis'' by divergent approaches. Proteomics '''8:''' 4123-4136 [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed] | ||
| + | # Kawai, Y., R. A. Daniel, J. Errington (2009) Regulation of cell wall morphogenesis in ''Bacillus subtilis'' by recruitment of PBP1 to the MreB helix. ''Mol. Microbiol.'' '''71:''' 1131-1144. [http://www.ncbi.nlm.nih.gov/sites/entrez/19192185 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 02:41, 30 April 2009
- Description: penicillin-binding proteins 1A/1B
| Gene name | ponA |
| Synonyms | |
| Essential | no |
| Product | penicillin-binding proteins 1A/1B |
| Function | bifunctional glucosyltransferase/ transpeptidase |
| MW, pI | 99 kDa, 4.752 |
| Gene length, protein length | 2742 bp, 914 aa |
| Immediate neighbours | recU, ypoC |
| Get the DNA and protein sequences (Barbe et al., 2009) | |
Genetic context 
This image was kindly provided by SubtiList
| |
Contents
The gene
Basic information
- Coordinates:
Phenotypes of a mutant
prevents bulging of the cells when grown at low Mg(2+) concentrations, suppresses the lethal effect of a mreB mutation PubMed
Database entries
- DBTBS entry: [1]
- SubtiList entry: [2]
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:
- Interactions:
- Localization: Cytoplasm membrane associated PubMed , localizes to the spore septum during sporulation Link to a summary
Database entries
- Structure:
- Swiss prot entry:
- KEGG entry: [3]
- E.C. number:
Additional information
Expression and regulation
- Operon:
- Regulation: constitutive during vegetative growth Link to a summary
- Regulatory mechanism:
- Additional information:
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Jeff Errington lab
- Antibody:
Labs working on this gene/protein
Jeff Errington, Newcastle University, UK homepage
Your additional remarks
References
- Hahne et al. (2008) From complementarity to comprehensiveness - targeting the membrane proteome of growing Bacillus subtilis by divergent approaches. Proteomics 8: 4123-4136 PubMed
- Kawai, Y., R. A. Daniel, J. Errington (2009) Regulation of cell wall morphogenesis in Bacillus subtilis by recruitment of PBP1 to the MreB helix. Mol. Microbiol. 71: 1131-1144. PubMed
- Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
