Difference between revisions of "Sandbox"
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| − | * '''Description:''' | + | * '''Description:''' transcriptional antiterminator of the pyr operon <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''' | ||
| − | |'' | + | |''pyrR'' |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' |
|- | |- | ||
|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''' || transcriptional antiterminator with minor uracil phosphoribosyltransferase activity |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of pyrimidine biosynthesis |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 20 kDa, 4.991 |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 543 bp, 181 aa |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ylyB]]'', ''[[pyrP]]'' |
|- | |- | ||
| − | |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:CAB13421]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' |
|- | |- | ||
| − | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |colspan="2" | '''Genetic context''' <br/> [[Image:pyrR_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 41: | Line 41: | ||
=== Database entries === | === Database entries === | ||
| − | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ | + | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/pyrRPBCAAABKDFE.html] |
| − | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10712] |
=== Additional information=== | === Additional information=== | ||
| Line 57: | Line 57: | ||
* '''Paralogous protein(s):''' | * '''Paralogous protein(s):''' | ||
| − | |||
| − | |||
| − | |||
| − | |||
=== Extended information on the protein === | === Extended information on the protein === | ||
| Line 74: | Line 70: | ||
* '''Effectors of protein activity:''' | * '''Effectors of protein activity:''' | ||
| − | * '''Interactions:''' [[ | + | * '''Interactions:''' [[PyrR]]-[[PyrR]] |
* '''Localization:''' | * '''Localization:''' | ||
| Line 84: | Line 80: | ||
* '''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+BSU15470] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
| Line 92: | Line 88: | ||
=Expression and regulation= | =Expression and regulation= | ||
| − | * '''Operon:' | + | * '''Operon:''' |
| − | |||
| − | * '''[[Sigma factor]]:''' | + | * '''[[Sigma factor]]:''' |
| − | * '''Regulation:''' | + | * '''Regulation:''' |
| − | |||
| − | * '''Regulatory mechanism:''' | + | * '''Regulatory mechanism:''' |
| − | * '''Additional information:''' | + | * '''Additional information:''' |
=Biological materials = | =Biological materials = | ||
| Line 124: | Line 118: | ||
=References= | =References= | ||
| + | # Tomchik, D. R., Turner, R. J., Switzer, R. L., and Smith, J. L. (1998) Adaptation of an enzyme to regulatory function: structure of Bacillus subtilis PyrR, a pyr RNA-binding attenuation protein and uracil phosphoribosyltransferase. Structure 6: 337-350. [http://www.ncbi.nlm.nih.gov/sites/entrez/9551555 PubMed] | ||
| + | # Turner, R. J., Bonner, E. R., Grabner, G. K., and Switzer, R. L. (1998) Purification and characterization of Bacillus subtilis PyrR, a bifunctional pyr mRNA-binding attenuation protein/uracil phosphoribosyltransferase. J Biol Chem 273: 5932-5938. [http://www.ncbi.nlm.nih.gov/sites/entrez/9488732 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 12:07, 28 April 2009
- Description: transcriptional antiterminator of the pyr operon
| Gene name | pyrR |
| Synonyms | |
| Essential | no |
| Product | transcriptional antiterminator with minor uracil phosphoribosyltransferase activity |
| Function | regulation of pyrimidine biosynthesis |
| MW, pI | 20 kDa, 4.991 |
| Gene length, protein length | 543 bp, 181 aa |
| Immediate neighbours | ylyB, pyrP |
| 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
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:
- Localization:
Database entries
- Structure:
- Swiss prot entry:
- KEGG entry: [3]
- E.C. number:
Additional information
Expression and regulation
- Operon:
- 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
- Tomchik, D. R., Turner, R. J., Switzer, R. L., and Smith, J. L. (1998) Adaptation of an enzyme to regulatory function: structure of Bacillus subtilis PyrR, a pyr RNA-binding attenuation protein and uracil phosphoribosyltransferase. Structure 6: 337-350. PubMed
- Turner, R. J., Bonner, E. R., Grabner, G. K., and Switzer, R. L. (1998) Purification and characterization of Bacillus subtilis PyrR, a bifunctional pyr mRNA-binding attenuation protein/uracil phosphoribosyltransferase. J Biol Chem 273: 5932-5938. PubMed
- Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
