Difference between revisions of "Sandbox"

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−
* '''Description:''' stimulation of Spx degradation <br/><br/>
+
* '''Description:''' truncated hemoglobin, NO protection <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'''
−
|''yjbH''
+
|''yjbI''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|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''' || truncated hemoglobin
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || stimulation of Spx degradation
+
|style="background:#ABCDEF;" align="center"|'''Function''' || constitutive protection against NO
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 31 kDa, 5.206  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 5.173  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 825 bp, 275 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 396 bp, 132 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pepF]]'', ''[[yjbI]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yjbH]]'', ''[[yjbJ]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yjbH_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yjbI_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yjbH_protein.txt Protein sequence]'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/yjbI_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yjbH_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yjbI_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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* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13137]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13138]
  
 
=== Additional information===
 
=== Additional information===
Line 53: Line 53:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' adaptor protein for ClpXP-catalyzed Spx degradation [http://www.ncbi.nlm.nih.gov/sites/entrez/19074380 PubMed]
+
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' UPF0413 family
+
* '''Protein family:''' protozoan/cyanobacterial globin family
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 67: Line 67:
 
* '''Modification:'''
 
* '''Modification:'''
  
−
* '''Cofactor(s):'''contains Zn atoms (coordinated by the N-terminal His-rich region) [http://www.ncbi.nlm.nih.gov/sites/entrez/19074380 PubMed]
+
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:''' Zn atom is released upon treatment with strong oxidants [http://www.ncbi.nlm.nih.gov/sites/entrez/19074380 PubMed]
+
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' YjbH-[[Spx]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19074380 PubMed]
+
* '''Interactions:'''
  
 
* '''Localization:'''
 
* '''Localization:'''
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* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU11550]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU11560]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 114: Line 114:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
 
−
[[Peter Zuber]], Oregon Health and Science University, USA
 
−
[http://www.ogi.edu/people/dsp_person.cfm?person_id=411D6801-2A56-D16D-58A06B4480EDB9C7 Homepage]
 
−
 
−
[[Claes von Wachenfeldt]], Lund University, Sweden [http://aron.ldc.lu.se/kundwebb/cellorg/mibiol/research/wachen/index.htm Homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
# Garg et al. 2009. The YjbH protein of Bacillus subtilis enhances ClpXP-catalyzed proteolysis of Spx. J. Bacteriol. 191: 1268-1277. [http://www.ncbi.nlm.nih.gov/sites/entrez/19074380 PubMed]
+
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
−
# Larsson, J. T., A. Rogstam, and C. von Wachenfeldt. 2007. YjbH is a novel negative effector of the disulphide stress regulator, Spx, in Bacillus subtilis. Mol. Microbiol. 66:669-684. [http://www.ncbi.nlm.nih.gov/sites/entrez/17908206 PubMed]
 

Revision as of 04:10, 12 April 2009

  • Description: truncated hemoglobin, NO protection

Gene name yjbI
Synonyms
Essential no
Product truncated hemoglobin
Function constitutive protection against NO
MW, pI 14 kDa, 5.173
Gene length, protein length 396 bp, 132 aa
Immediate neighbours yjbH, yjbJ
Gene sequence (+200bp) Protein sequence
Genetic context
YjbI context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family: protozoan/cyanobacterial globin family
  • Paralogous protein(s):

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: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • 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

  1. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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