YtdI

• Description: inorganic polyphosphate/ATP-NAD kinase
  
  

Gene name	ytdI
Synonyms	ppnKB
Essential	no
Product	inorganic polyphosphate/ATP-NAD kinase
Function	generation of NADP from NAD
Gene expression levels in SubtiExpress: ytdI
Metabolic function and regulation of this protein in SubtiPathways: YtdI
MW, pI	30 kDa, 6.49
Gene length, protein length	801 bp, 267 aa
Immediate neighbours	sppA, ytcJ
Sequences	Protein DNA DNA_with_flanks
Genetic context This image was kindly provided by SubtiList
Expression at a glance   PubMed

Categories containing this gene/protein

biosynthesis of cofactors

The gene

Basic information

• Locus tag: BSU29540

Database entries

• BsubCyc: BSU29540

• DBTBS entry: no entry

• SubtiList entry: [1]

The protein

Basic information/ Evolution

• Catalyzed reaction/ biological activity: ATP + NAD⁺ = ADP + NADP⁺ (according to Swiss-Prot)

• Protein family: NAD kinase family (according to Swiss-Prot)

• Paralogous protein(s):

Extended information on the protein

• Kinetic information:

• Domains:

• Modification:

• Cofactor(s):

• Effectors of protein activity:

• Interactions:

• Localization: cytoplasm (according to Swiss-Prot)

Database entries

• BsubCyc: BSU29540

• Structure: 1YT5 (from Thermotoga maritima) PubMed

• UniProt: O34934

• KEGG entry: [2]

• E.C. number: 2.7.1.23

Expression and regulation

• Operon: ytdI PubMed

• Expression browser: ytdI PubMed

• Sigma factor:

• Regulation:

• Regulatory mechanism:
  • RoxS: inhibition of translation and initiation of RNA degradation by RNase Y and RNase III PubMed

• Additional information:
  • the mRNA base-pairs with the RoxS sRNA PubMed
  • half-life of the mRNA: 8.4 min, in a roxS mutant 15 min, in a rny mutant 24 min PubMed
  • the mRNA is substantially stabilized upon depletion of RNase Y PubMed
  • two pathways of mRNA degradation: (i) by RNase Y, (ii) by combined action of RoxS and RNase III PubMed
  • number of protein molecules per cell (minimal medium with glucose and ammonium): 714 PubMed
  • number of protein molecules per cell (complex medium with amino acids, without glucose): 1384 PubMed

Biological materials

• Mutant:

• Expression vector:

• lacZ fusion:

• GFP fusion:

• two-hybrid system:

• Antibody:

References

Sylvain Durand, Frédérique Braun, Efthimia Lioliou, Cédric Romilly, Anne-Catherine Helfer, Laurianne Kuhn, Noé Quittot, Pierre Nicolas, Pascale Romby, Ciarán Condon
A nitric oxide regulated small RNA controls expression of genes involved in redox homeostasis in Bacillus subtilis.
PLoS Genet: 2015, 11(2);e1004957
[PubMed:25643072] [WorldCat.org] [DOI] (I e)

Martin Lehnik-Habrink, Marc Schaffer, Ulrike Mäder, Christine Diethmaier, Christina Herzberg, Jörg Stülke
RNA processing in Bacillus subtilis: identification of targets of the essential RNase Y.
Mol Microbiol: 2011, 81(6);1459-73
[PubMed:21815947] [WorldCat.org] [DOI] (I p)

Vaheh Oganesyan, Candice Huang, Paul D Adams, Jaru Jancarik, Hisao A Yokota, Rosalind Kim, Sung-Hou Kim
Structure of a NAD kinase from Thermotoga maritima at 2.3 A resolution.
Acta Crystallogr Sect F Struct Biol Cryst Commun: 2005, 61(Pt 7);640-6
[PubMed:16511117] [WorldCat.org] [DOI] (I p)