Difference between revisions of "Sandbox"
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| − | * '''Description:''' | + | * '''Description:''' RNA polymerase forespore-specific (early) [[sigma factor]] SigF <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''' | ||
| − | |'' | + | |''sigF'' |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spoIIAC '' |
|- | |- | ||
| − | |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''' || RNA polymerase forespore-specific (early) [[sigma factor]] SigF |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || transcription of sporulation genes (late mother cell) |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.078 |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 765 bp, 255 aa |
|- | |- | ||
| − | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoVAA]]'', ''[[spoIIAB]]'' |
|- | |- | ||
| − | |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:CAB14277]+-newId sequences] <br/> (Barbe ''et al.'', 2009)''' |
|- | |- | ||
| − | + | |colspan="2" | '''Genetic context''' <br/> [[Image:sigF_context.gif]] | |
| − | |||
| − | |colspan="2" | '''Genetic context''' <br/> [[Image: | ||
<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 40: | Line 38: | ||
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
| − | |||
| − | |||
=== Database entries === | === Database entries === | ||
| − | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ | + | * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dacF-spoIIAAB-sigF.html] |
| − | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10298] |
=== Additional information=== | === Additional information=== | ||
| Line 61: | Line 57: | ||
* '''Paralogous protein(s):''' | * '''Paralogous protein(s):''' | ||
| + | |||
| + | === Genes controlled by SigF === | ||
| + | |||
| + | ''[[dacF]]-[[spoIIAA]]-[[spoIIAB]]-[[sigF]]'', ''[[sigG]]'','' [[pbpF]]'', ''[[yphA]]-[[seaA]]'' | ||
=== Extended information on the protein === | === Extended information on the protein === | ||
| Line 84: | Line 84: | ||
* '''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+BSU23450] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
| Line 92: | Line 92: | ||
=Expression and regulation= | =Expression and regulation= | ||
| − | * '''Operon:''' | + | * '''Operon:''' ''[[dacF]]-[[spoIIAA]]-[[spoIIAB]]-[[sigF]]'' |
| + | ''[[spoIIAA]]-[[spoIIAB]]-[[sigF]]'' | ||
| − | * '''[[Sigma factor]]:''' | + | * '''[[Sigma factor]]:''' ''[[dacF]]'': [[SigF]], [[SigG]] |
| + | ''[[spoIIA]]'': [[SigH]] | ||
| − | * '''Regulation:''' | + | * '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed] , ''[[dacF]]'': expressed during sporulation, ''[[spoIIAA]]'': expressed early during sporulation |
| − | * '''Regulatory mechanism:''' | + | * '''Regulatory mechanism:''' ''[[spoIIAA]]'': activated by [[Spo0A]] and repressed by [[SinR]] |
| − | * '''Additional information:''' | + | * '''Additional information:''' |
=Biological materials = | =Biological materials = | ||
| Line 112: | Line 114: | ||
* '''GFP fusion:''' | * '''GFP fusion:''' | ||
| − | * '''two-hybrid system:''' | + | * '''two-hybrid system:''' |
| − | * '''Antibody:''' | + | * '''Antibody:''' |
=Labs working on this gene/protein= | =Labs working on this gene/protein= | ||
| − | |||
| − | |||
=Your additional remarks= | =Your additional remarks= | ||
| Line 124: | Line 124: | ||
=References= | =References= | ||
| + | # Mäder et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 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 08:22, 27 April 2009
- Description: RNA polymerase forespore-specific (early) sigma factor SigF
| Gene name | sigF |
| Synonyms | spoIIAC |
| Essential | no |
| Product | RNA polymerase forespore-specific (early) sigma factor SigF |
| Function | transcription of sporulation genes (late mother cell) |
| MW, pI | 29 kDa, 5.078 |
| Gene length, protein length | 765 bp, 255 aa |
| Immediate neighbours | spoVAA, spoIIAB |
| 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 SigF
dacF-spoIIAA-spoIIAB-sigF, sigG, pbpF, yphA-seaA
Extended information on the protein
- Kinetic information:
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
- Interactions:
- Localization:
Database entries
- Structure:
- Swiss prot entry:
- KEGG entry: [3]
- E.C. number:
Additional information
Expression and regulation
- Sigma factor: dacF: SigF, SigG
- Regulation: repressed by casamino acids PubMed , dacF: expressed during sporulation, spoIIAA: expressed early during sporulation
- Additional information:
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
