Difference between revisions of "Sandbox"
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| − | * '''Description:''' | + | * '''Description:''' RNA polymerase ECF-type [[sigma factor]] SigX <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''' | ||
| − | |'' | + | |''sigX'' |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ypuM '' |
|- | |- | ||
|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''' || RNA polymerase ECF-type [[sigma factor]] SigX |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || cell surface properties |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 6.086 |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 582 bp, 194 aa |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rsiX]]'', ''[[resE]]'' |
|- | |- | ||
| − | |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:CAB14242]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' |
|- | |- | ||
|- | |- | ||
|- | |- | ||
| − | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |colspan="2" | '''Genetic context''' <br/> [[Image:sigX_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 31: | Line 31: | ||
__TOC__ | __TOC__ | ||
| − | + | <br/><br/> | |
=The gene= | =The gene= | ||
| Line 45: | Line 45: | ||
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sigX-rsiX.html] | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sigX-rsiX.html] | ||
| − | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10536] |
=== Additional information=== | === Additional information=== | ||
| Line 59: | Line 59: | ||
* '''Paralogous protein(s):''' | * '''Paralogous protein(s):''' | ||
| + | |||
| + | === Genes controlled by SigX === | ||
| + | |||
| + | ''[[pbpX]]'', ''[[csbB]]'', ''[[abh]]'', ''[[dltA]]-[[dltB]]-[[dltC]]-[[dltD]]-[[dltE]]'' | ||
=== Extended information on the protein === | === Extended information on the protein === | ||
| Line 82: | Line 86: | ||
* '''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+BSU23100] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
| Line 90: | Line 94: | ||
=Expression and regulation= | =Expression and regulation= | ||
| − | * '''Operon:''' ''[[sigX]]-[[rsiX]]'' | + | * '''Operon:''' '' [[sigX]]-[[rsiX]]'' |
* '''[[Sigma factor]]:''' | * '''[[Sigma factor]]:''' | ||
| Line 120: | Line 124: | ||
=References= | =References= | ||
| + | # Huang X, Helmann JD. (1998) Identification of target promoters for the Bacillus subtilis sigma X factor using a consensus-directed search. ''J Mol Biol.'' '''279:''' 165-173. [http://www.ncbi.nlm.nih.gov/sites/entrez/9636707 PubMed] | ||
| + | # Serizawa M, Kodama K, Yamamoto H, Kobayashi K, Ogasawara N, Sekiguchi J. (2005) Functional analysis of the YvrGHb two-component system of ''Bacillus subtilis'': identification of the regulated genes by DNA microarray and northern blot analyses. ''Biosci. Biotechnol. Biochem.'' '''69:''' 2155-2169. [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 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 00:09, 28 April 2009
- Description: RNA polymerase ECF-type sigma factor SigX
| Gene name | sigX |
| Synonyms | ypuM |
| Essential | no |
| Product | RNA polymerase ECF-type sigma factor SigX |
| Function | cell surface properties |
| MW, pI | 23 kDa, 6.086 |
| Gene length, protein length | 582 bp, 194 aa |
| Immediate neighbours | rsiX, resE |
| 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):
Genes controlled by SigX
pbpX, csbB, abh, dltA-dltB-dltC-dltD-dltE
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
- Regulation:
- 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
- Huang X, Helmann JD. (1998) Identification of target promoters for the Bacillus subtilis sigma X factor using a consensus-directed search. J Mol Biol. 279: 165-173. PubMed
- Serizawa M, Kodama K, Yamamoto H, Kobayashi K, Ogasawara N, Sekiguchi J. (2005) Functional analysis of the YvrGHb two-component system of Bacillus subtilis: identification of the regulated genes by DNA microarray and northern blot analyses. Biosci. Biotechnol. Biochem. 69: 2155-2169. PubMed
- Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
