Difference between revisions of "Sandbox"

From SubtiWiki
Jump to: navigation, search
Line 1: Line 1:
−
* '''Description:''' transcriptional pleiotropic regulator invoved in global nitrogen regulation <br/><br/>
+
* '''Description:''' magnesium transport via permease (no H+) <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'''
−
|''tnrA''
+
|''mgtE ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''scgR ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykoK''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription activator/ repressor
+
|style="background:#ABCDEF;" align="center"| '''Product''' || magnesium transport via permease (no H+)
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' ||regulation of nitrogen assimilation <br/>(positive regulation of nrgAB, nasBCDEF, gabP,<br/> ureABC, guaD; negative regulation of glnRA, gltAB)
+
|style="background:#ABCDEF;" align="center"|'''Function''' || magnesium uptake
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 10.235  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 4.609  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 330 bp, 110 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1353 bp, 451 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mgtE]]'', ''[[ykzB]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykzD]]'', ''[[tnrA]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:tnrA_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:ykoK_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>
 
|-
 
|-
Line 29: Line 29:
 
__TOC__
 
__TOC__
  
−
<br/><br/><br/>
+
<br/><br/>
  
 
=The gene=
 
=The gene=
Line 41: Line 41:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/tnrA.html]
+
* '''DBTBS entry:''' no entry
−
 
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13256]
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11805]
 
  
 
=== Additional information===
 
=== Additional information===
Line 57: Line 56:
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
−
 
−
=== Genes/ operons controlled by TnrA ===
 
−
 
−
* '''Activation by TnrA:''' ''[[nrgA]]-[[nrgB]]''
 
−
 
−
* '''Repression by TnrA:''' ''[[degS]]-[[degU]]'', ''[[gltA]]-[[gltB]]''
 
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 74: Line 67:
 
* '''Cofactor(s):'''
 
* '''Cofactor(s):'''
  
−
* '''Effectors of protein activity:''' feedback-inhibited [[GlnA]] prevents TnrA from DNA binding
+
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' [[TnrA]]-[[NrgB]]  [http://www.ncbi.nlm.nih.gov/sites/entrez/17001076 PubMed], [[TnrA]]-[[GlnA]], this interaction results in loss of TnrA DNA-binding activity
+
* '''Interactions:'''
  
 
* '''Localization:'''
 
* '''Localization:'''
Line 86: Line 79:
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU13310]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU13300]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 116: Line 109:
 
* '''two-hybrid system:'''  
 
* '''two-hybrid system:'''  
  
−
* '''Antibody:''' available in the [[Karl Forchhammer]] lab
+
* '''Antibody:'''
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
 
−
[[Susan Fisher]], Boston, USA [http://www.bumc.bu.edu/microbiology/research/susan-h-fisher-phd/ homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 126: Line 117:
 
=References=
 
=References=
  
−
# Wray LV Jr, Ferson AE, Rohrer K, Fisher SH (1996) TnrA, a transcription factor required for global nitrogen regulation in Bacillus subtilis. Proc Natl Acad Sci USA 93:8841-8845. [http://www.ncbi.nlm.nih.gov/sites/entrez/8799114 PubMed]
 
−
# Yoshida K, et al. (2003) Identification of additional TnrA-regulated genes of ''Bacillus subtilis'' associated with a TnrA box. ''Mol Microbiol'' '''49:''' 157-65. [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+12823818 PubMed]
 
−
# Wray LV Jr, Zalieckas JM, Fisher SH. (2001) ''Bacillus subtilis'' glutamine synthetase controls gene expression through protein-protein interaction with transcription factor TnrA. Cell 107:427-435. [http://www.ncbi.nlm.nih.gov/sites/entrez/11719184 PubMed]
 
−
# Belitsky, B. R., and Sonenshein, A. L. (2004) Modulation of activity of ''Bacillus subtilis'' regulatory proteins GltC and TnrA by glutamate dehydrogenase. J Bacteriol 186: 3399-3407.[http://www.ncbi.nlm.nih.gov/sites/entrez/15150225 PubMed]
 
−
# Belitsky, B. R., Wray, L. V., Jr., Fisher, S. H., Bohannon, D. E. & Sonenshein, A. L. (2000). Role of TnrA in nitrogen source-dependent repression of ''Bacillus subtilis'' glutamate synthase gene expression. J Bacteriol 182, 5939-5947. [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11029411 PubMed]
 
−
# Heinrich, A., Woyda, K., Brauburger, K., Meiss, G., Detsch, C., Stülke, J. & Forchhammer, K. (2006) Interaction of the membrane-bound GlnK-AmtB complex with the master regulator of nitrogen metabolism TnrA in ''Bacillus subtilis''. J. Biol. Chem. 281: 34909-34917. [http://www.ncbi.nlm.nih.gov/sites/entrez/17001076 PubMed]
 
−
# Tojo S, Satomura T, Morisaki K, Yoshida KI, Hirooka K, Fujita Y: Negative transcriptional regulation of the ''ilv-leu'' operon for biosynthesis of branched-chain amino acids through the ''Bacillus subtilis'' global regulator TnrA. J Bacteriol 2004, 186:7971-7979. [http://www.ncbi.nlm.nih.gov/sites/entrez/15547269 PubMed]
 
−
# Fisher, S. H., Brandenburg, J. L. & Wray, L. V. (2002). Mutations in ''Bacillus subtilis'' glutamine synthetase that block its interaction with transcription factor TnrA. Mol Microbiol 45, 627-635. [http://www.ncbi.nlm.nih.gov/sites/entrez/12139611 PubMed]
 
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 20:12, 15 April 2009

  • Description: magnesium transport via permease (no H+)

Gene name mgtE
Synonyms ykoK
Essential no
Product magnesium transport via permease (no H+)
Function magnesium uptake
MW, pI 50 kDa, 4.609
Gene length, protein length 1353 bp, 451 aa
Immediate neighbours ykzD, tnrA
Hier soll was neues rein
Genetic context
YkoK 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:
  • 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
Retrieved from "http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Sandbox&oldid=56216"