SubtiWiki - User contributions [en]

TrpE

2009-06-08T13:36:58Z

MLGö: /* References */

* '''Description:''' anthranilate synthase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''trpE''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || anthranilate synthase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of tryptophan
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 57 kDa, 5.246
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1545 bp, 515 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trpD]]'', ''[[aroH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14184]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:trpE_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU22680

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10287]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Chorismate + L-glutamine = anthranilate + pyruvate + L-glutamate (according to Swiss-Prot)

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:''' subject to feedback inhibition by tryptophan [http://www.ncbi.nlm.nih.gov/sites/entrez/19258532 PubMed]

* '''Interactions:'''

* '''Localization:'''

=== Database entries ===

* '''Structure:'''

* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P03963 P03963]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU22680]

* '''E.C. number:''' [http://www.expasy.org/enzyme/4.1.3.27 4.1.3.27]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[trpE]]-[[trpD]]-[[trpC]]-[[trpF]]-[[trpB]]-[[trpA]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/3924737 PubMed]

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/6436812 PubMed]

* '''Regulation:''' induction by tryptophan ([[MtrB| TRAP]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1551827 PubMed]

* '''Regulatory mechanism:''' [[MtrB| TRAP]]: binding to the mRNA in the presence of tryptophan, this results in transcription termination [http://www.ncbi.nlm.nih.gov/sites/entrez/8419914 PubMed]

* '''Additional information:''' subject to feedback inhibition by tryptophan [http://www.ncbi.nlm.nih.gov/sites/entrez/19258532 PubMed]

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed> 14976255, 3924737, 6436812,2422155,8419914, 1551827, 16285852 </pubmed>
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

TrpB

2009-06-07T16:53:15Z

MLGö: /* References */

* '''Description:''' tryptophan synthase (beta subunit) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''trpB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || tryptophan synthase (beta subunit)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of tryptophan
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 43 kDa, 5.526
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1200 bp, 400 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trpA]]'', ''[[trpF]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14180]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:trpB_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU22640

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10290]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' L-serine + 1-C-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O (according to Swiss-Prot)

* '''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:''' [http://www.uniprot.org/uniprot/P07600 P07600]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU22640]

* '''E.C. number:''' [http://www.expasy.org/enzyme/4.2.1.20 4.2.1.20]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[trpE]]-[[trpD]]-[[trpC]]-[[trpF]]-[[trpB]]-[[trpA]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/3924737 PubMed]

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/6436812 PubMed]

* '''Regulation:''' induction by tryptophan ([[MtrB| TRAP]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1551827 PubMed]

* '''Regulatory mechanism:''' [[MtrB| TRAP]]: binding to the mRNA in the presence of tryptophan, this results in transcription termination [http://www.ncbi.nlm.nih.gov/sites/entrez/8419914 PubMed]

* '''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=

<pubmed> 14976255, 3924737, 6436812,2422155,8419914, 1551827, 17507374 </pubmed>
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

SigB

2009-02-19T18:03:52Z

MLGö: /* References */

* '''Description:''' write here 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''sigB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''rpoF ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || RNA polymerase sigma-37 factor (sigma-B)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || general stress sigma factor (class II genes)
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.418
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 792 bp, 264 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' ||
|-
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/sigB_nucleotide.txt Gene sequence (+200bp) ]'''
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/sigB_protein.txt Protein sequence]'''
|-
|colspan="2" | '''Genetic context''' [[Image:sigB_context.gif]]
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Coordinates:'''

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10735]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Genes/ operons controlled by SigB ===

''[[ctc]]'', [[lexA]],[[licR]], [[RsfA]], [[xpf]], [[ydeC]], [[ytzE]], [[yvaN]], [[ywhH]]

=== 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:'''

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

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''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=

# Petersohn, A., Bernhardt, J., Gerth, U., Höper, D., Koburger, T., Völker, U. and Hecker, M. 1999. Identification of sigma(B)-dependent genes in Bacillus subtilis using a promoter consensus-directed search and oligonucleotide hybridization. J. Bacteriol. 181: 5718-5724. [http://www.ncbi.nlm.nih.gov/sites/entrez/10482513 PubMed]
# Petersohn, A., Brigulla, M., Haas, S., Hoheisel, J. D., Völker, U. and Hecker, M. 2001. Global analysis of the general stress reponse of Bacillus subtilis. J. Bacteriol. 183: 5617-5631. [http://www.ncbi.nlm.nih.gov/sites/entrez/11544224 PubMed]
# Price, C. W., Fawcett, P., Cérémonie, H., Su, N., Murphy, C. K. and Youngman, P. 2001. Genome-wide analysis of the general stress response in Bacillus subtilis. Mol. Microbiol. 41: 757-774. [http://www.ncbi.nlm.nih.gov/sites/entrez/11532142 PubMed]
# Ollington, J. F., Haldenwang, W. G., Huynh, T. V. and Losick, R. 1981. Developmentally regulated transcription in a cloned segment of the Bacillus subtilis chromosome. J. Bacteriol. 147: 432-442. [http://www.ncbi.nlm.nih.gov/sites/entrez/6790515 PubMed]
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
# Haldenwang, W. G. & Losick, R. (1979). A modified RNA polymerase transcribes a cloned gene under sporulation control in Bacillus subtilis. Nature 282, 256-260 [http://www.ncbi.nlm.nih.gov/pubmed/116131 PubMed]