Difference between revisions of "Fin"

From SubtiWiki
Jump to: navigation, search
 
(36 intermediate revisions by 6 users not shown)
Line 1: Line 1:
−
* '''Description:''' unknown <br/><br/>
+
* '''Description:'''  
−
 
+
** suppressor of ''[[recU]]'' mutations, participates in the stabilization and or processing of holliday junction intermediates {{PubMed|11810266}}<br/>
 +
** alternative description: antagonist to [[SigF]], required for the switch from [[SigF]]- to [[SigG]]-dependent gene expression in the forespore {{PubMed|21037003}}<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'''
−
|''yabK''
+
|''subA''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yabK''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown  
+
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+
|style="background:#ABCDEF;" align="center"|'''Function''' || homologous recombination
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00540 fin]
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 8 kDa, 5.192   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 8 kDa, 5.192   
Line 20: Line 23:
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoVC]]'', ''[[mfd]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoVC]]'', ''[[mfd]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yabK_nucleotide.txt    Gene sequence     (+200bp)  ]'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00540 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00540 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00540 DNA_with_flanks]
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yabK_protein.txt Protein sequence]'''
 
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:yabK_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:yabK_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>
 +
|-
 +
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yabK_60130_60360_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:fin_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00540]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
  
 
<br/><br/>
 
<br/><br/>
 +
 +
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[DNA repair/ recombination]]}},
 +
{{SubtiWiki category|[[sigma factors and their control]]}},
 +
{{SubtiWiki category|[[sporulation proteins]]}}
 +
 +
= This gene is a member of the following [[regulons]] =
 +
  
 
=The gene=
 
=The gene=
Line 36: Line 54:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates:'''
+
* '''Locus tag:''' BSU00540
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
 
+
sporulation defect (50-fold reduction of viable spore count) and arrest after engulfment {{PubMed|21037003}}
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU00540&redirect=T BSU00540]
  
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
Line 47: Line 66:
  
 
=== Additional information===
 
=== Additional information===
 +
 +
  
  
Line 71: Line 92:
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''[[SubtInteract|Interactions]]:'''  
 +
** [[SigF]]-[[Fin]] (probably) {{PubMed|21037003}}
  
−
* '''Localization:'''
+
* '''[[Localization]]:''' localizes diffusely within the forespore compartment of sporangia at both early and late stages of sporulation, cytosolic protein {{PubMed|21037003}}
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU00540&redirect=T BSU00540]
  
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:'''
+
* '''UniProt:''' [http://www.uniprot.org/uniprot/P37553 P37553]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU00540]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00540]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 91: Line 114:
 
* '''Operon:'''  
 
* '''Operon:'''  
  
−
* '''Sigma factor:'''  
+
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yabK_60130_60360_1 fin] {{PubMed|22383849}}
  
−
* '''Regulation:'''  
+
* '''Sigma factor:''' [[SigF]] {{PubMed|21037003}}, [[SigG]] {{PubMed|21037003}}
 +
 
 +
* '''Regulation:''' expressed in two waves in the forespore (after two hours ([[SigF]]) and three hours ([[SigG]]) after the onset of sporulation) {{PubMed|21037003}}
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
Line 118: Line 143:
  
 
=References=
 
=References=
−
 
+
<pubmed> 15317759 11810266 </pubmed>
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
'''Additional publications:''' {{PubMed|21037003}}
 +
[[Category:Protein-coding genes]]

Latest revision as of 12:46, 2 April 2014

  • Description:
    • suppressor of recU mutations, participates in the stabilization and or processing of holliday junction intermediates PubMed
    • alternative description: antagonist to SigF, required for the switch from SigF- to SigG-dependent gene expression in the forespore PubMed

Gene name subA
Synonyms yabK
Essential no
Product unknown
Function homologous recombination
Gene expression levels in SubtiExpress: fin
MW, pI 8 kDa, 5.192
Gene length, protein length 228 bp, 76 aa
Immediate neighbours spoVC, mfd
Sequences Protein DNA DNA_with_flanks
Genetic context
YabK context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
Fin expression.png
























Categories containing this gene/protein

DNA repair/ recombination, sigma factors and their control, sporulation proteins

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU00540

Phenotypes of a mutant

sporulation defect (50-fold reduction of viable spore count) and arrest after engulfment 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:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Localization: localizes diffusely within the forespore compartment of sporangia at both early and late stages of sporulation, cytosolic protein PubMed

Database entries

  • Structure:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation: expressed in two waves in the forespore (after two hours (SigF) and three hours (SigG) after the onset of sporulation) PubMed
  • 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

Additional publications: PubMed

Retrieved from "http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Fin&oldid=198356"