thiD

168

4-amino-5-hydroxymethyl-2-methylpyrimidine and 4-amino-5-hydroxymethyl-2-methylpyrimidine pyrophosphate kinase

Locus: BSU_11710

Molecular weight: 28.97 kDa

Isoelectric point: 5.71

Protein length: 271 aa

Gene length: 816 bp

Function: biosynthesis of thiamine pyrophosphate (TPP)

Product: 4-amino-5-hydroxymethyl-2-methylpyrimidinepyrophosphate kinase

Essential: no

E.C.: 2.7.1.49

Synonyms: thiD, yjbV

Genomic Context

Hide small RNAsZoom:

List of homologs in different organisms, belongs to COG0351 (Galperin et al., 2021)

Gene

Coordinates: 1,246,837  1,247,652

The protein

Catalyzed reaction/ biological activity

• 4-amino-5-hydroxymethyl-2-methylpyrimidine + ATP --> 4-amino-2-methyl-5-(phosphooxymethyl)pyrimidine + ADP + H⁺ (according to UniProt)
• 4-amino-2-methyl-5-(phosphooxymethyl)pyrimidine + ATP --> 4-amino-2-methyl-5-(diphosphooxymethyl)pyrimidine + ADP (according to UniProt)

Protein family

• ThiD family (with PdxK, according to UniProt)

Structure

• 2I5B (PDB) PubMed
• O31620 (AlphaFold)

Paralogous protein(s)

• PdxK

Expression and Regulation

Operons

• Genes: tenA-tenI-thiO-thiS-thiG-thiF-thiD

  Description: PubMed

  Regulation

  • repressed by thiamine (Thi-box) PubMed
  • antitermination is modulated by NusG-dependent transcription pausing just upstream of the Thi-box PubMed
  • the Thi-box RNA is degraded by RNase Y PubMed

  Regulatory mechanism

  • Thi-box: RNA switch, via RNA switch, in Thi-box regulon

Biological materials

Mutant

• MGNA-B167 (yjbV::erm), available at the NBRP B. subtilis, Japan
• BKE11710 (thiD::erm  trpC2) available at BGSC,  PubMed, upstream reverse: _UP1_ACTCATTACACTACACTCCT,  downstream forward: _UP4_TGAGATCACCAGCTGATGGT
• BKK11710 (thiD::kan  trpC2) available at BGSC,  PubMed, upstream reverse: _UP1_ACTCATTACACTACACTCCT,  downstream forward: _UP4_TGAGATCACCAGCTGATGGT

References

Reviews

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Original Publications

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