Difference between revisions of "GanB"

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m (moved YvfO to GanB: 22893383)
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* '''Description:''' arabinogalactan endo-1,4-beta-galactosidase <br/><br/>
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* '''Description:''' endo-1,4-beta-galactosidase <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'''
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|''yvfO''
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|''ganB''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' yvfO''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || arabinogalactan endo-1,4-beta-galactosidase  
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|style="background:#ABCDEF;" align="center"| '''Product''' || endo-1,4-beta-galactosidase  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || galactan utilization
 
|style="background:#ABCDEF;" align="center"|'''Function''' || galactan utilization
 
|-
 
|-
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU34120 yvfO]
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|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU34120 ganB]
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 8.243   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 8.243   
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1287 bp, 429 aa  
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1287 bp, 429 aa  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rsbP]]'', ''[[lacA]]''
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rsbP]]'', ''[[ganA]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15417&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15417&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
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===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
* a ''[[cycB]]-[[ganP]]-[[ganQ]]-[[ganA]]-[[ganB]]'' mutant is impaired in the utilization of galactan {{PubMed|22893383}}
  
 
=== Database entries ===
 
=== Database entries ===
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=== Additional information===
 
=== Additional information===
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
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* '''Catalyzed reaction/ biological activity:''' Endohydrolysis of (1->4)-beta-D-galactosidic linkages in arabinogalactans (according to Swiss-Prot)
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* '''Catalyzed reaction/ biological activity:''' Endohydrolysis of (1->4)-beta-D-galactosidic linkages in galactan, generation of galactotriose {{PubMed|22893383}}
  
 
* '''Protein family:''' glycosyl hydrolase 53 family (according to Swiss-Prot)
 
* '''Protein family:''' glycosyl hydrolase 53 family (according to Swiss-Prot)
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
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* '''Interactions:'''
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* '''[[SubtInteract|Interactions]]:'''
  
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* '''Localization:'''
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* '''[[Localization]]:'''
 +
** likely to be extrecellular {{PubMed|22893383}}
  
 
=== Database entries ===
 
=== Database entries ===
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=Expression and regulation=
 
=Expression and regulation=
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* '''Operon:''' ''[[cycB]]-[[yvfL]]-[[yvfM]]-[[lacA]]-[[yvfO]]'' {{PubMed|9287030}}  
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* '''Operon:''' ''[[cycB]]-[[ganP]]-[[ganQ]]-[[ganA]]-[[ganB]]'' {{PubMed|9287030}}  
  
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* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ganB_3501651_3502940_-1 yvfO] {{PubMed|22383849}}
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* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ganB_3501651_3502940_-1 ganB] {{PubMed|22383849}}
  
 
* '''Sigma factor:'''  
 
* '''Sigma factor:'''  
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=References=
 
=References=
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<pubmed>17056685 9287030 </pubmed>
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<pubmed>17056685 9287030 22893383 </pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 13:57, 16 August 2012

  • Description: endo-1,4-beta-galactosidase

Gene name ganB
Synonyms yvfO
Essential no
Product endo-1,4-beta-galactosidase
Function galactan utilization
Gene expression levels in SubtiExpress: ganB
MW, pI 47 kDa, 8.243
Gene length, protein length 1287 bp, 429 aa
Immediate neighbours rsbP, ganA
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YvfO context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YvfO expression.png















Categories containing this gene/protein

utilization of specific carbon sources

This gene is a member of the following regulons

LacR regulon

The gene

Basic information

  • Locus tag: BSU34120

Phenotypes of a mutant

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: Endohydrolysis of (1->4)-beta-D-galactosidic linkages in galactan, generation of galactotriose PubMed
  • Protein family: glycosyl hydrolase 53 family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:

Database entries

  • Structure: 2J74 (B. licheniformis)
  • KEGG entry: [3]

Additional information

Expression and regulation

  • Sigma factor:
  • 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

Yunrong Chai, Pascale B Beauregard, Hera Vlamakis, Richard Losick, Roberto Kolter
Galactose metabolism plays a crucial role in biofilm formation by Bacillus subtilis.
mBio: 2012, 3(4);e00184-12
[PubMed:22893383] [WorldCat.org] [DOI] (I e)

Stephanie Shipkowski, Jean E Brenchley
Bioinformatic, genetic, and biochemical evidence that some glycoside hydrolase family 42 beta-galactosidases are arabinogalactan type I oligomer hydrolases.
Appl Environ Microbiol: 2006, 72(12);7730-8
[PubMed:17056685] [WorldCat.org] [DOI] (P p)

R A Daniel, J Haiech, F Denizot, J Errington
Isolation and characterization of the lacA gene encoding beta-galactosidase in Bacillus subtilis and a regulator gene, lacR.
J Bacteriol: 1997, 179(17);5636-8
[PubMed:9287030] [WorldCat.org] [DOI] (P p)

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