Difference between revisions of "Sandbox"

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* '''Description:''' two-component response regulator, control of cellular responses to protein secretion stress <br/><br/>
+
* '''Description:''' cytochrome-c oxidase (subunit I) <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'''
−
|''cssR''
+
|''ctaD''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvqA ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || two-component response regulator
+
|style="background:#ABCDEF;" align="center"| '''Product''' || cytochrome-c oxidase (subunit I)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || control of cellular responses to protein secretion stress
+
|style="background:#ABCDEF;" align="center"|'''Function''' || respiration
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 5.071  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 68 kDa, 6.985  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 675 bp, 225 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1866 bp, 622 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[htrB]]'', ''[[cssS]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ctaC]]'', ''[[ctaE]]''
 
|-
 
|-
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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:CAB15291&#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:CAB13363&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:cssR_context.gif]]
+
|-
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:ctaD_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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=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:''' BSU33010
+
* '''Locus tag:''' BSU14900
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
 +
essential [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cssRS.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ctaBCDEFG.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14131]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10216]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 56:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' 4 ferrocytochrome c + O<sub>2</sub> + 4 H<sup>+</sup> = 4 ferricytochrome c + 2 H<sub>2</sub>O (according to Swiss-Prot)
  
−
* '''Protein family:''' OmpR family of two-component response regulators
+
* '''Protein family:''' heme-copper respiratory oxidase family (according to Swiss-Prot)
  
−
* '''Paralogous protein(s):'''
+
* '''Paralogous protein(s):''' [[QoxB]]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 72: Line 76:
 
* '''Interactions:'''
 
* '''Interactions:'''
  
−
* '''Localization:''' cytoplasm (according to Swiss-Prot)
+
* '''Localization:''' cell membrane (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
Line 78: Line 82:
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/O32192 O32192]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P24010 P24010]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU33010]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU14900]
  
−
* '''E.C. number:'''
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.9.3.1 1.9.3.1]
  
 
=== Additional information===
 
=== Additional information===
Line 118: Line 122:
 
=References=
 
=References=
  
−
<pubmed>12270824 11555295, </pubmed>
+
<pubmed>17114254, </pubmed>
−
# Darmon E, Noone D, Masson A, Bron S, Kuipers OP, Devine KM, van Dijl JM. (2002) A novel class of heat and secretion stress-responsive genes is controlled by the autoregulated CssRS two-component system of Bacillus subtilis. ''J Bacteriol. '' '''184(20):''' 5661-71. [http://www.ncbi.nlm.nih.gov/sites/entrez/12270824 PubMed]
+
# Thomaides, H. B., Davison, E. J., Burston, L., Johnson, H., Brown, D. R., Hunt, A. C., Errington, J., and Czaplewski, L. (2007) Essential bacterial functions encoded by gene pairs. J Bacteriol 189, 591-602. [http://www.ncbi.nlm.nih.gov/sites/entrez/17114254 PubMed]
−
# Hyyryläinen HL, Bolhuis A, Darmon E, Muukkonen L, Koski P, Vitikainen M, Sarvas M, Prágai Z, Bron S, van Dijl JM, Kontinen VP. (2001) A novel two-component regulatory system in Bacillus subtilis for the survival of severe secretion stress. ''Mol Microbiol. '' '''41(5):''' 1159-72. [http://www.ncbi.nlm.nih.gov/sites/entrez/11555295 PubMed]
+
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 13:14, 8 June 2009

  • Description: cytochrome-c oxidase (subunit I)

Gene name ctaD
Synonyms
Essential yes PubMed
Product cytochrome-c oxidase (subunit I)
Function respiration
MW, pI 68 kDa, 6.985
Gene length, protein length 1866 bp, 622 aa
Immediate neighbours ctaC, ctaE
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
CtaD context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU14900

Phenotypes of a mutant

essential PubMed

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: 4 ferrocytochrome c + O2 + 4 H+ = 4 ferricytochrome c + 2 H2O (according to Swiss-Prot)
  • Protein family: heme-copper respiratory oxidase family (according to Swiss-Prot)
  • Paralogous protein(s): QoxB

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization: cell membrane (according to Swiss-Prot)

Database entries

  • Structure:
  • KEGG entry: [3]

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

Helena B Thomaides, Ella J Davison, Lisa Burston, Hazel Johnson, David R Brown, Alison C Hunt, Jeffery Errington, Lloyd Czaplewski
Essential bacterial functions encoded by gene pairs.
J Bacteriol: 2007, 189(2);591-602
[PubMed:17114254] [WorldCat.org] [DOI] (P p)

  1. Thomaides, H. B., Davison, E. J., Burston, L., Johnson, H., Brown, D. R., Hunt, A. C., Errington, J., and Czaplewski, L. (2007) Essential bacterial functions encoded by gene pairs. J Bacteriol 189, 591-602. PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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