SubtiBank SubtiBank
yfkN
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yfkN

cell wall-anchored 3'5' cyclic dinucleotide 3' phosphodiesterase, degrades c-di-AMP
Locus
BSU_07840
Isoelectric point
5.02
Molecular weight
159.47 kDa
Protein length
1462 aa Sequence Blast
Gene length
4389 bp Sequence Blast
Function
degradation of c-di-AMP
Product
cell wall-anchored 3'5' cyclic dinucleotide 3′ phosphodiesterase, degrades c-di-AMP
Essential
no
E.C.
3.1.4.16
Synonyms
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      
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Categories containing this gene/protein

  • Metabolism → Nucleotide metabolism → Metabolism of signalling nucleotides
  • Groups of genes → Secreted proteins

    • Gene

    Coordinates
    855,114 → 859,502

    Phenotypes of a mutant

  • essential according to Kobayshi et al. PubMed, but a deletion mutant could be constructed PubMed

    • The protein

    Catalyzed reaction/ biological activity

  • degrades c-di-AMP two 5′ AMP molecules PubMed
  • nucleoside 2',3'-cyclic phosphate + H2O --> nucleoside 3'-phosphate + H+ (according to UniProt)
  • ribonucleoside 3'-phosphate + H2O --> ribonucleoside + phosphate (according to UniProt)
  • ribonucleoside 5'-phosphate + H2O --> ribonucleoside + phosphate (according to UniProt)

    • Protein family

  • 5'-nucleotidase family (with YhcR, according to UniProt)

    • Paralogous protein(s)

  • YhcR

    • Cofactors

  • Mn2+ PubMed

    • Structure

  • 2Z1A (from Thermus thermophilus, 40% identity)
  • 3GVE (fragment, aa 37 - 374)

    • Localization

  • extracellular (signal peptide) PubMed, the transmembrane domain serves as retention signal, attached to the cell wall PubMed

    • Expression and Regulation

    Operons

    Genes
    yfkN
    Description
    PubMed

    Regulatory mechanism

  • CcpA: repression, PubMed, in CcpA regulon
  • PhoP: activation, PubMed, in PhoP regulon

    • Regulation

  • expressed under conditions of phosphate limitation (PhoP) PubMed
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    Biological materials

    Mutant

  • GP2026 (ΔyfkN::aphA3), available in Jörg Stülke's lab PubMed
  • MGNA-C263 (yfkN::erm), available at the NBRP B. subtilis, Japan
  • BKE07840 (ΔyfkN::erm trpC2) available at BGSC, PubMed, upstream reverse: _UP1_CACCAGTTCTCCACCTTTCA, downstream forward: _UP4_TAAAAAAGAGCTGCTCGCTA
  • BKK07840 (ΔyfkN::kan trpC2) available at BGSC, PubMed, upstream reverse: _UP1_CACCAGTTCTCCACCTTTCA, downstream forward: _UP4_TAAAAAAGAGCTGCTCGCTA

    • References

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