Difference between revisions of "Sandbox"

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−
* '''Description:''' molybdopterin precursor biosynthesis <br/><br/>
+
* '''Description:''' nitrogen-regulated PII-like protein <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'''
−
|''moaA''
+
|''nrgB''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''narA, narAB ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
 
|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''' || nitrogen-regulated PII-like protein
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || nitrate respiration
+
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of ammonium uptake
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 38 kDa, 9.285  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 8.825  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1023 bp, 341 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 348 bp, 116 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rapB]]'', ''[[fdhD]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nrgA]]'', ''[[bcrC]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15687&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/nrgB_nucleotide.txt    Gene sequence      (+200bp)  ]'''
 +
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/nrgB_protein.txt Protein sequence]'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:moaA_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:nrgB_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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=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/moaA.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/nrgAB.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10980]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10870]
  
 
=== Additional information===
 
=== Additional information===
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* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:''' MoaA family (according to Swiss-Prot)
+
* '''Protein family:''' P(II) protein family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''Interactions:''' [[NrgA]]-[[NrgB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/14600241 PubMed], [[TnrA]]-[[NrgB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17001076 PubMed]
  
−
* '''Localization:'''
+
* '''Localization:''' cell membrane (according to Swiss-Prot),  membrane
  
 
=== Database entries ===
 
=== Database entries ===
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* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P39757 P39757]
+
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/Q07428 Q07428]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU36700 BSU36700]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU36520 BSU36520]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[nrgA]]-[[nrgB]]''
  
−
* '''[[Sigma factor]]:'''  
+
* '''[[Sigma factor]]:''' [[SigA]]
  
−
* '''Regulation:'''  
+
* '''Regulation:''' induced by ammonium limitation
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' transcription activation by [[TnrA]]
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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* '''two-hybrid system:'''  
 
* '''two-hybrid system:'''  
  
−
* '''Antibody:'''
+
* '''Antibody:''' available in [[Jörg Stülke]] lab
  
 
=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=
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=References=
 
=References=
  
 +
# Atkinson MR, Fisher SH (1991) Identification of genes and gene products whose expression is activated during nitrogen-limited growth in Bacillus subtilis. J Bacteriol 173:23-27. [http://www.ncbi.nlm.nih.gov/sites/entrez/1670935 PubMed]
 +
# Wray, L. V., Atkinson, M. R. & Fisher, S. H. (1994). The nitrogen-regulated Bacillus subtilis nrgAB operon encodes a membrane protein and a protein highly similar to the Escherichia coli glnB-encoded PII protein. J Bacteriol 176, 108-114. [http://www.ncbi.nlm.nih.gov/sites/entrez/8282685 PubMed]
 +
# Detsch, C. & Stülke, J. (2003) Ammonium utilization in ''Bacillus subtilis'': transport and regulatory functions of NrgA and NrgB. Microbiology 149: 3289-3297. [http://www.ncbi.nlm.nih.gov/sites/entrez/14600241 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]
 
# 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 13:30, 25 May 2009

  • Description: nitrogen-regulated PII-like protein

Gene name nrgB
Synonyms
Essential no
Product nitrogen-regulated PII-like protein
Function regulation of ammonium uptake
MW, pI 12 kDa, 8.825
Gene length, protein length 348 bp, 116 aa
Immediate neighbours nrgA, bcrC
Gene sequence (+200bp) Protein sequence
Genetic context
NrgB context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family: P(II) protein family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • E.C. number:

Additional information

Expression and regulation

  • Regulation: induced by ammonium limitation
  • Regulatory mechanism: transcription activation by TnrA
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:

Labs working on this gene/protein

Susan Fisher, Boston, USA homepage

Your additional remarks

References

  1. Atkinson MR, Fisher SH (1991) Identification of genes and gene products whose expression is activated during nitrogen-limited growth in Bacillus subtilis. J Bacteriol 173:23-27. PubMed
  2. Wray, L. V., Atkinson, M. R. & Fisher, S. H. (1994). The nitrogen-regulated Bacillus subtilis nrgAB operon encodes a membrane protein and a protein highly similar to the Escherichia coli glnB-encoded PII protein. J Bacteriol 176, 108-114. PubMed
  3. Detsch, C. & Stülke, J. (2003) Ammonium utilization in Bacillus subtilis: transport and regulatory functions of NrgA and NrgB. Microbiology 149: 3289-3297. PubMed
  4. 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. PubMed
  5. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
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