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rnjA [2020-02-19 15:41:08]
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rnjA [2020-02-19 15:41:08]

RNase J1, important for the degradation of RNA fragments containing transcription terminators, resolves stalled transcription complexes
locus
BSU_14530
pI
5.90
mw
61.34 kDa
protein length
555 aa Sequence Blast
gene length
1668 bp Sequence Blast
function
RNA processing
product
RNase J1
essential
no
synonyms
ykqC
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 3|Information processing] → [category|SW 3.2|RNA synthesis and degradation] → [category|SW 3.2.4|RNases] → [category|SW 3.2.4.1|Exoribonucleases]
  • [category|SW 6|Groups of genes] → [category|SW 6.1|Essential genes]

    • Gene

    Coordinates
    1,523,118 1,524,785

    Phenotypes of a mutant

  • growth is strongly impaired (doubling time in complex medium 145 minutes vs. 43 minutes for the wild type) [pubmed|26883633]
  • the mutant is strongly impaired in [SW|sporulation], [SW|genetic competence] and many other phenotypes [Pubmed|23504012]
  • it is not possible to construct a ''[gene|3EB289D0F58A58C693AB588798EE66A731341999|rnjA] [gene|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|rny]'' double mutant [Pubmed|23504012]

    • The protein

    Catalyzed reaction/ biological activity

  • endonuclease and 5'-3' exonuclease
  • degrades [protein|8950A485A0FEA4BA2FFC0C74A8D3D5D73D44B3FF|SR5] and ''[gene|EB6512177418B1601C6641FB2DEE99C2CD10E671|gapA]'' RNAs [pubmed|27449348]
  • degrades [gene|search|yflS ]mRNA [pubmed|28436820]
  • resolves stalled transcription complexes by a “torpedo” mechanism, whereby RNase J1 degrades the nascent RNA and causes the transcription complex to disassemble upon collision with [SW|RNA polymerase] [pubmed|31840842]

    • Protein family

  • [SW|metallo-beta-lactamase superfamily] (according to UniProt)

    • Paralogous protein(s)

  • [protein|B73CE26E7AEFACFA82C67F3E7DBBB3F766F739CA|RnjB]

    • Effectors of protein activity

  • initeraction with [protein|EB6512177418B1601C6641FB2DEE99C2CD10E671|GapA]-[protein|FC93BA60BD185DE5EF31D5605F0B8294EC2E8E5A|Sr1] stimulates activity [Pubmed|27449348]
  • a NAD-cap stabilizes RNA against exonucleolytic attack by RNase J1 [pubmed|30110644]

    • Structure

  • [PDB|3ZQ4] [Pubmed|21893285]

    • [SW|Localization]

  • cytoplasm, colocalizes with the ribosomes [Pubmed|27708634]

    • Additional information

  • subject to Clp-dependent proteolysis upon glucose starvation [PubMed|17981983]
  • required for [gene|3E1131CFA3EDEB3865638F09BE2F6B6ED2570BE2|thrS] RNA processing, involved in maturation of the 5-end of the 16S rRNA

    • Expression and Regulation

    Operons

    genes
    [gene|5F41273FB867C688011738CD45AA6FF5D3987EFE|rpoY]-[gene|3EB289D0F58A58C693AB588798EE66A731341999|rnjA]
    description
    [Pubmed|24187087]

    sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|24187087], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]
    • view in new tab

    Biological materials

    Mutant

  • GP41 (''rnjA'' under control of p(xyl)), available in [SW|Jörg Stülke]'s lab
  • SSB342 (''rnjA'' under pspac), cat, available in [SW|Harald Putzer]'s lab
  • GP2506 ([gene|3EB289D0F58A58C693AB588798EE66A731341999|rnjA]::''spc''), available in [SW|Jörg Stülke]'s lab

    • Expression vectors

  • for chromosomal expression of RNase J1-Strep (spc): GP1034, available in [SW|Jörg Stülke]'s lab
  • for chromosomal expression of RNase J1-Strep (cat): GP1042, available in [SW|Jörg Stülke]'s lab
  • pGP1441: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [SW|pGP172], available in [SW|Jörg Stülke]'s lab

    • lacZ fusion

  • pGP418 (in [SW|pAC7]), available in [SW|Jörg Stülke]'s lab

    • GFP fusion

  • GP1694 (in pHJS-105 [Pubmed|26110430]), expression of '' rnjA-sfGFP''::''spc'' under a xylose-inducible promoter in '' B. subtilis'', available in [SW|Jörg Stülke]'s lab [Pubmed|27708634]
  • GP1722 (in [SW|pBP43]), expression of '' rnjA-GFP''::''spc'' under the native promoter, available in [SW|Jörg Stülke]'s lab [Pubmed|27708634]

    • two-hybrid system

  • B. pertussis adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW|Jörg Stülke]'s lab, [pubmed|19193632]

    • FLAG-tag construct

  • GP1020 (spc, based on [SW|pGP1331]), available in [SW|Jörg Stülke]'s lab
  • GP1075 (aphA3), available in [SW|Jörg Stülke]'s lab

    • labs

  • [SW|Harald Putzer], IBPC Paris, France [http://www.ibpc.fr/UPR9073/putzer/recherches_harald.htm Homepage]
  • [SW|David Bechhofer], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers Laboratories and Programs/Bechhofer Laboratory?citype=Physician&ciid=Bechhofer David H 1255565 Homepage]
  • [SW|Ciaran Condon], IBPC, Paris, France [http://www.ibpc.fr/UPR9073/condon/index_en.html Homepage]

    • References

    Reviews

  • 20458164,21334965,21893280,23403287,21957024,22568516,24064983,25292357,27750368,29314657,29651979,31464530

    • Original publications

  • 25940620,18079181,19553197,17981983,19458035,15831787,18204464,18713320,19193632,17005971,18445592,17512403,17229210,17576666,19210617,19633085,19638340,19850915,19880604,20025672,20418391,20572937,21803996,21862575,21925382,22198292,22412379,23504012,21893285,21893286,21908660,24187087,26253740,26802042,26940229,27708634,27449348,28277929,28436820,28542621,28795788,26883633,29242153,30110644,30502948,31840842