Difference between revisions of "Hom"

From SubtiWiki
Jump to: navigation, search
Line 37: Line 37:
 
<br/><br/><br/><br/>
 
<br/><br/><br/><br/>
 
<br/><br/><br/><br/>
 
<br/><br/><br/><br/>
<br/><br/><br/><br/>
+
<br/><br/>
<br/><br/><br/><br/>
 
 
 
 
 
<br/><br/><br/><br/><br/><br/>
 
  
 
= [[Categories]] containing this gene/protein =
 
= [[Categories]] containing this gene/protein =
Line 48: Line 44:
  
 
= This gene is a member of the following [[regulons]] =
 
= This gene is a member of the following [[regulons]] =
 
+
{{SubtiWiki regulon|[[CodY regulon]]}}
  
 
=The gene=
 
=The gene=
Line 65: Line 61:
  
 
=== Additional information===
 
=== Additional information===
 
 
 
  
 
=The protein=
 
=The protein=
Line 83: Line 76:
 
* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
* '''Domains:'''  
+
* '''[[Domains]]:'''  
  
 
* '''Modification:'''
 
* '''Modification:'''
  
* '''Cofactor(s):'''
+
* '''[[Cofactors]]:'''
  
 
* '''Effectors of protein activity:''' subject to feedback inhibition [http://www.ncbi.nlm.nih.gov/sites/entrez/19258532 PubMed]
 
* '''Effectors of protein activity:''' subject to feedback inhibition [http://www.ncbi.nlm.nih.gov/sites/entrez/19258532 PubMed]
Line 113: Line 106:
 
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=hom_3314828_3316129_-1 hom] {{PubMed|22383849}}
 
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=hom_3314828_3316129_-1 hom] {{PubMed|22383849}}
  
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
 
** repressed by casamino acids {{PubMed|12107147}}
 
** repressed by casamino acids {{PubMed|12107147}}
 +
** repressed during growth in the presence of branched chain amino acids ([[CodY]]) {{PubMed|24163341}}
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
 +
** [[CodY]]: transcription repression {{PubMed|24163341}}
  
 
* '''Additional information:'''  subject to feedback inhibition [http://www.ncbi.nlm.nih.gov/sites/entrez/19258532 PubMed]
 
* '''Additional information:'''  subject to feedback inhibition [http://www.ncbi.nlm.nih.gov/sites/entrez/19258532 PubMed]
Line 142: Line 137:
 
=References=
 
=References=
  
<pubmed>12107147 18763711 3139660, 19258532 </pubmed>
+
<pubmed>12107147 18763711 3139660, 19258532 24163341</pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 14:06, 22 December 2013

  • Description: homoserine dehydrogenase (NADPH)

Gene name hom
Synonyms
Essential no
Product homoserine dehydrogenase (NADPH)
Function biosynthesis of methionine and threonine
Gene expression levels in SubtiExpress: hom
Metabolic function and regulation of this protein in SubtiPathways:
Lys, Thr
MW, pI 47 kDa, 4.9
Gene length, protein length 1299 bp, 433 aa
Immediate neighbours thrC, yutH
Sequences Protein DNA DNA_with_flanks
Genetic context
Hom context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
Hom expression.png















Categories containing this gene/protein

biosynthesis/ acquisition of amino acids, membrane proteins

This gene is a member of the following regulons

CodY regulon

The gene

Basic information

  • Locus tag: BSU32260

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: L-homoserine + NAD(P)+ = L-aspartate 4-semialdehyde + NAD(P)H (according to Swiss-Prot)
  • Protein family: homoserine dehydrogenase family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Modification:
  • Effectors of protein activity: subject to feedback inhibition PubMed

Database entries

  • Structure: 2EJW (from Thermus thermophilus hb8, 37% identity, 57% similarity)
  • KEGG entry: [2]

Additional information

Expression and regulation

  • Regulation:
    • repressed by casamino acids PubMed
    • repressed during growth in the presence of branched chain amino acids (CodY) PubMed
  • Regulatory mechanism:
  • Additional information: subject to feedback inhibition PubMed

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Allison Kriel, Shaun R Brinsmade, Jessica L Tse, Ashley K Tehranchi, Alycia N Bittner, Abraham L Sonenshein, Jue D Wang
GTP dysregulation in Bacillus subtilis cells lacking (p)ppGpp results in phenotypic amino acid auxotrophy and failure to adapt to nutrient downshift and regulate biosynthesis genes.
J Bacteriol: 2014, 196(1);189-201
[PubMed:24163341] [WorldCat.org] [DOI] (I p)

Ana Gutiérrez-Preciado, Tina M Henkin, Frank J Grundy, Charles Yanofsky, Enrique Merino
Biochemical features and functional implications of the RNA-based T-box regulatory mechanism.
Microbiol Mol Biol Rev: 2009, 73(1);36-61
[PubMed:19258532] [WorldCat.org] [DOI] (I p)

Hannes Hahne, Susanne Wolff, Michael Hecker, Dörte Becher
From complementarity to comprehensiveness--targeting the membrane proteome of growing Bacillus subtilis by divergent approaches.
Proteomics: 2008, 8(19);4123-36
[PubMed:18763711] [WorldCat.org] [DOI] (I p)

Ulrike Mäder, Georg Homuth, Christian Scharf, Knut Büttner, Rüdiger Bode, Michael Hecker
Transcriptome and proteome analysis of Bacillus subtilis gene expression modulated by amino acid availability.
J Bacteriol: 2002, 184(15);4288-95
[PubMed:12107147] [WorldCat.org] [DOI] (P p)

C Parsot, G N Cohen
Cloning and nucleotide sequence of the Bacillus subtilis hom gene coding for homoserine dehydrogenase. Structural and evolutionary relationships with Escherichia coli aspartokinases-homoserine dehydrogenases I and II.
J Biol Chem: 1988, 263(29);14654-60
[PubMed:3139660] [WorldCat.org] (P p)