SubtiBank SubtiBank
pnpA
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pnpA

polynucleotide phosphorylase, RNase, involved in double-strand break repair
Locus
BSU_16690
Isoelectric point
4.89
Molecular weight
77.28 kDa
Protein length
705 aa Sequence Blast
Gene length
2118 bp Sequence Blast
Function
DNA repair, competence development, RNA degradation
Product
polynucleotide phosphorylase (PNPase)
Essential
no
E.C.
2.7.7.8
Synonyms
comR

Genomic Context

      
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Categories containing this gene/protein

Gene

Coordinates
1,739,383 1,741,500

Phenotypes of a mutant

  • The pnpA mutant is cold sensitive and sensitive to tetracyclin, it shows multiseptate filamentous growth PubMed
  • The mutant is deficient in genetic competence (no expression of the late competence genes) PubMed
  • The pnpA mutant exhibits reduced motility and reduced expression of the fla-che operon resulting from accumulation of slrA mRNA PubMed
  • The mutant overexpresses the trp and putB-putC-putP operons.
  • The protein

    Catalyzed reaction/ biological activity

  • 3'-5' exoribonuclease, RNase
  • PNPase degrades the trp mRNA from RNA-TRAP complex
  • degradation of the SlrA mRNA from the 3' end, through the Rho-dependent terminator PubMed
  • involved in double-strand break (DSB) repair via homologous recombination (HR) or non-homologous end-joining (NHEJ) PubMed
  • degrades ssDNA (3' - 5') (stimulated by RecA, inhibited by SsbA) PubMed
  • can polymerize ssDNA at a free 3' OH end, stimulated by RecN PubMed
  • phosphate + RNA(n+1) --> ribonucleoside 5'-diphosphate + RNA(n) (according to UniProt)
  • Protein family

  • polyribonucleotide nucleotidyltransferase family (single member, according to UniProt)
  • Domains

  • KH domain (aa 554-613) (according to UniProt)
  • S1 domain (aa 623-691) (according to UniProt)
  • Structure

  • 5YJJ (protein from Staphylococcus aureus) PubMed
  • 3GCM (protein from E. coli, PNPase/RNase E micro-domain/RNA tetragonal crystal form )
  • Localization

  • cytoplasm (homogeneous) PubMed
  • Additional information

  • required for the expression of late competence genes comGA and comK, requirement bypassed by a mecA disruption; may be necessary for modification of the srfAA transcript (stabilization or translation activation)
  • belongs to the 100 most abundant proteins PubMed
  • Expression and Regulation

    Operons

    Genes
    Description

    Regulatory mechanism

  • stringent response: negative regulation, in stringent response
  • Regulation

  • RelA dependent downregulation (Class I) during stringent response PubMed
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    Biological materials

    Mutant

  • GP1748 (pnpA::aphA3), available in Jörg Stülke's lab, PubMed
  • BKE16690 (pnpA::erm trpC2) available at BGSC, PubMed, upstream reverse: _UP1_CATACAATTACGAACTCCTC, downstream forward: _UP4_TAAATGAAAACATAAAAGGA
  • BKK16690 (pnpA::kan trpC2) available at BGSC, PubMed, upstream reverse: _UP1_CATACAATTACGAACTCCTC, downstream forward: _UP4_TAAATGAAAACATAAAAGGA
  • Expression vectors

  • for expression, purification in E. coli with N-terminal His-tag, in pWH844: pGP838, available in Jörg Stülke's lab
  • for expression/ purification from B. subtilis with N-terminal Strep-tag, for SPINE, in pGP380: pGP1342, available in Jörg Stülke's lab
  • for chromosomal expression of PnpA-Strep (cat): GP1002, available in Jörg Stülke's lab
  • for chromosomal expression of PnpA-Strep (spc): GP1038, available in Jörg Stülke's lab
  • pGP1439: IPTG inducible expression, purification in E. coli with N-terminal Strep-tag, in pGP172, available in Jörg Stülke's lab
  • GFP fusion

  • GP1698 (in pBP43), expression of pnpA-GFP::spc under the native promoter, available in Jörg Stülke's lab PubMed
  • Two-hybrid system

  • B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Jörg Stülke's lab, PubMed
  • FLAG-tag construct

  • GP1021 (spc, based on pGP1331) PubMed, available in Jörg Stülke's lab
  • GP1076 (ermC) PubMed, available in Jörg Stülke's lab
  • Labs working on this gene/protein

    References

    Reviews

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    Original publications

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    PNPase in ''E. coli

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