SubtiWiki - User contributions [en]

ComK

2009-04-21T12:57:08Z

Oscar kuipers: /* References */

* '''Description:''' competence transcription factor (CTF) <br/><br/>

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comK''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || competence transcription factor (CTF)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of competence and DNA uptake
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 7.669
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhzC]]'', ''[[yhxD]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12882]+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' <br/> [[Image:comK_context.gif]]
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
|-
|}

__TOC__

<br/><br/>

=The gene=

=== Basic information ===

* '''Coordinates:'''

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11059]

=== 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:'''

* '''Interactions:'''

* '''Localization:'''

=== Database entries ===

* '''Structure:'''

* '''Swiss prot entry:'''

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU10420]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''[[Sigma factor]]:'''

* '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Oscar Kuipers]], University of Groningen, The Netherlands
[http://molgen.biol.rug.nl/molgen/index.php Homepage]

=Your additional remarks=

=References=

# Mäder et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
# Smits, W.K., Bongiorni, C., Veening, J.W., Hamoen, L.W., Kuipers, O.P. & Perego, M. (2007) Temporal separation of distinct differentiation pathways by a dual specificity Rap-Phr system in Bacillus subtilis. Mol. Microbiol. 65, 103-120. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
# Smits, W.K., Hoa, T.T., Hamoen, L.W., Kuipers, O.P. & Dubnau, D. (2007) Antirepression as a second mechanism of transcriptional activation by a minor groove binding protein. Mol. Microbiol. 64, 368-381. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
Smits, W.K., Kuipers, O.P. & Veening, J.W. (2006) Phenotypic variation in bacteria: the role of feedback regulation. Nat. Rev. Microbiol. 4, 259-271.
Susanna, K.A., den Hengst, C.D., Hamoen, L.W. & Kuipers, O.P. (2006) Expression of Transcription Activator ComK of Bacillus subtilis in the Heterologous Host Lactococcus lactis Leads to a Genome-Wide Repression Pattern: a Case Study of Horizontal Gene Transfer. Appl. Environ. Microbiol. 72, 404-411.
Susanna, K.A., Fusetti, F., Thunnissen, A.M., Hamoen, L.W. & Kuipers, O.P. (2006) Functional analysis of the competence transcription factor ComK of Bacillus subtilis by characterization of truncation variants. Microbiology 152, 473-483.

# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

ComK

2009-04-21T12:40:57Z

Oscar kuipers: /* References */

* '''Description:''' competence transcription factor (CTF) <br/><br/>

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comK''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || competence transcription factor (CTF)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of competence and DNA uptake
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 7.669
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhzC]]'', ''[[yhxD]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12882]+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' <br/> [[Image:comK_context.gif]]
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
|-
|}

__TOC__

<br/><br/>

=The gene=

=== Basic information ===

* '''Coordinates:'''

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11059]

=== 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:'''

* '''Interactions:'''

* '''Localization:'''

=== Database entries ===

* '''Structure:'''

* '''Swiss prot entry:'''

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU10420]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''[[Sigma factor]]:'''

* '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Oscar Kuipers]], University of Groningen, The Netherlands
[http://molgen.biol.rug.nl/molgen/index.php Homepage]

=Your additional remarks=

=References=

# Mäder et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

2. Smits, W.K., Bongiorni, C., Veening, J.W., Hamoen, L.W., Kuipers, O.P. & Perego, M. (2007) Temporal separation of distinct differentiation pathways by a dual specificity Rap-Phr system in Bacillus subtilis. Mol. Microbiol. 65, 103-120.

3. Smits, W.K., Hoa, T.T., Hamoen, L.W., Kuipers, O.P. & Dubnau, D. (2007) Antirepression as a second mechanism of transcriptional activation by a minor groove binding protein. Mol. Microbiol. 64, 368-381.

ComK

2009-04-21T12:39:49Z

Oscar kuipers: /* References */

* '''Description:''' competence transcription factor (CTF) <br/><br/>

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comK''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || competence transcription factor (CTF)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of competence and DNA uptake
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 7.669
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhzC]]'', ''[[yhxD]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12882]+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' <br/> [[Image:comK_context.gif]]
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
|-
|}

__TOC__

<br/><br/>

=The gene=

=== Basic information ===

* '''Coordinates:'''

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comK.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11059]

=== 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:'''

* '''Interactions:'''

* '''Localization:'''

=== Database entries ===

* '''Structure:'''

* '''Swiss prot entry:'''

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU10420]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''[[Sigma factor]]:'''

* '''Regulation:''' repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Oscar Kuipers]], University of Groningen, The Netherlands
[http://molgen.biol.rug.nl/molgen/index.php Homepage]

=Your additional remarks=

=References=

# Mäder et al. (2002) Transcriptome and Proteome Analysis of ''Bacillus subtilis'' Gene Expression Modulated by Amino Acid Availability. ''J. Bacteriol'' '''184:''' 1844288-4295 [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Smits, W.K., Bongiorni, C., Veening, J.W., Hamoen, L.W., Kuipers, O.P. & Perego, M. (2007) Temporal separation of distinct differentiation pathways by a dual specificity Rap-Phr system in Bacillus subtilis. Mol. Microbiol. 65, 103-120.

Smits, W.K., Hoa, T.T., Hamoen, L.W., Kuipers, O.P. & Dubnau, D. (2007) Antirepression as a second mechanism of transcriptional activation by a minor groove binding protein. Mol. Microbiol. 64, 368-381.