Difference between revisions of "XynC"

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|-
 
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|style="background:#ABCDEF;" align="center"|'''Function''' || xylan degradation
 
|style="background:#ABCDEF;" align="center"|'''Function''' || xylan degradation
 +
|-
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|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=BSU18150 xynC]
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 9.078   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 9.078   
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ynfE]]'', ''[[xynD]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ynfE]]'', ''[[xynD]]''
 
|-
 
|-
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|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13698&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
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|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU18150 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU18150 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU18150 DNA_with_flanks]
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ynfF_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ynfF_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>
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|-
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|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=xynC_1942714_1943982_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:xynC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU18150]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/>
 +
 +
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[utilization of specific carbon sources]]}}
  
−
<br/><br/>
+
= This gene is a member of the following [[regulons]] =
 +
{{SubtiWiki regulon|[[AbrB regulon]]}}
  
 
=The gene=
 
=The gene=
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=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU18150&redirect=T BSU18150]
  
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
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=== Additional information===
 
=== Additional information===
 +
 +
  
  
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
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* '''[[SubtInteract|Interactions]]:'''  
  
−
* '''Localization:''' secreted (according to Swiss-Prot),  extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
+
* '''[[Localization]]:'''
 +
** extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU18150&redirect=T BSU18150]
  
−
* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3GTN 3GTN]
+
* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3GTN 3GTN] {{PubMed|19407387,21256135}}
  
 
* '''UniProt:''' [http://www.uniprot.org/uniprot/Q45070 Q45070]
 
* '''UniProt:''' [http://www.uniprot.org/uniprot/Q45070 Q45070]
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=Expression and regulation=
 
=Expression and regulation=
 
* '''Operon:''' ''[[xynD]]-[[xynC]]'' {{PubMed|20817675}}
 
* '''Operon:''' ''[[xynD]]-[[xynC]]'' {{PubMed|20817675}}
 +
 +
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=xynC_1942714_1943982_-1 xynC] {{PubMed|22383849}}
  
 
* '''[[Sigma factor]]:'''  
 
* '''[[Sigma factor]]:'''  
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** [[AbrB]]: transcription repression {{PubMed|20817675}}
 
** [[AbrB]]: transcription repression {{PubMed|20817675}}
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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<pubmed>20735481 </pubmed>
 
<pubmed>20735481 </pubmed>
 
==Original publications==
 
==Original publications==
−
<pubmed>19407387,, 18957862, 17028274 20817675</pubmed>
+
<pubmed>19407387, 18957862, 17028274 20817675,21256135 24271172 </pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Latest revision as of 13:51, 2 April 2014

  • Description: endo-xylanase, preference for methylglucurono-xylan

Gene name xynC
Synonyms ynfF
Essential no
Product endo-xylanase
Function xylan degradation
Gene expression levels in SubtiExpress: xynC
MW, pI 47 kDa, 9.078
Gene length, protein length 1266 bp, 422 aa
Immediate neighbours ynfE, xynD
Sequences Protein DNA DNA_with_flanks
Genetic context
YnfF context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
XynC expression.png















Categories containing this gene/protein

utilization of specific carbon sources

This gene is a member of the following regulons

AbrB regulon

The gene

Basic information

  • Locus tag: BSU18150

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: Endohydrolysis of (1->4)-beta-D-xylosyl links in some glucuronoarabinoxylans (according to Swiss-Prot)
  • Protein family: glycosyl hydrolase 30 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

  • KEGG entry: [2]

Additional information

Expression and regulation

  • 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

Reviews

Original publications

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