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Q8ZM86

- VAPC_SALTY

UniProt

Q8ZM86 - VAPC_SALTY

Protein

tRNA(fMet)-specific endonuclease VapC

Gene

vapC

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 61 (01 Oct 2014)
      Sequence version 1 (01 Mar 2002)
      Previous versions | rss
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    Functioni

    Toxic component of a toxin-antitoxin (TA) module. A site-specific tRNA-(fMet) endonuclease, it cleaves both charged and uncharged tRNA-(fMet) between positions 38 and 39 at the anticodon stem-loop boundary. Does not cleave tRNA(Met), tRNA(Arg2), tRNA(His), tRNA(Leu), tRNA(Phe) tRNA(Thr1), tRNA(Tyr) or tRNA(Val). Overexpression in E.coli inhibits translation, leads to loss of cell growth and degradation of tRNA(fMet), these effects are neutralized by expression of cognate antitoxin VapB. Expression also activates translation initiation at correctly positioned elongator codons (AAA and to a lesser extent AAG).
    Ectopic overexpression in E.coli induces the YoeB toxin, but this is not the cause of VapC toxicity.

    Cofactori

    Magnesium.Curated

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi7 – 71MagnesiumSequence Analysis
    Metal bindingi98 – 981MagnesiumSequence Analysis

    GO - Molecular functioni

    1. endonuclease activity Source: UniProtKB-KW
    2. magnesium ion binding Source: UniProtKB-HAMAP
    3. ribonuclease activity Source: InterPro

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease, Toxin

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciSENT99287:GCTI-3053-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    tRNA(fMet)-specific endonuclease VapC (EC:3.1.-.-)
    Alternative name(s):
    RNase VapC
    Toxin VapC
    Gene namesi
    Name:vapC
    Ordered Locus Names:STM3033
    OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
    Taxonomic identifieri99287 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
    ProteomesiUP000001014: Chromosome

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi7 – 71D → A: No inhibition of cell growth, no degradation of tRNA(fMet). 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 132132tRNA(fMet)-specific endonuclease VapCPRO_0000410980Add
    BLAST

    Expressioni

    Inductioni

    Induced by amino acid starvation and by chloramphenicol treatment.1 Publication

    Interactioni

    Subunit structurei

    Forms a complex with antitoxin VapB.Curated

    Protein-protein interaction databases

    STRINGi99287.STM3033.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8ZM86.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini5 – 131127PINcAdd
    BLAST

    Sequence similaritiesi

    Belongs to the PINc/VapC protein family.Curated
    Contains 1 PINc domain.Curated

    Phylogenomic databases

    HOGENOMiHOG000121274.
    KOiK07062.
    OMAiKEMALLV.
    OrthoDBiEOG6ZWJH4.
    PhylomeDBiQ8ZM86.

    Family and domain databases

    Gene3Di3.40.50.1010. 1 hit.
    HAMAPiMF_00265. VapC_Nob1.
    InterProiIPR002716. PIN_dom.
    IPR029060. PIN_domain-like.
    IPR022907. VapC_family.
    [Graphical view]
    PfamiPF01850. PIN. 1 hit.
    [Graphical view]
    SMARTiSM00670. PINc. 1 hit.
    [Graphical view]
    SUPFAMiSSF88723. SSF88723. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q8ZM86-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLKFMLDTNT CIFTIKNKPE HIRERFNLNT SRMCISSITL MELIYGAEKS    50
    LAPERNLAVV EGFISRLEVL DYDTQAAIHT GQIRAELARK GTPVGPYDQM 100
    IAGHAGSRGL VVVTNNLREF ERIPGIRIED WC 132
    Length:132
    Mass (Da):14,938
    Last modified:March 1, 2002 - v1
    Checksum:i4AA4120DAD6B6057
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE006468 Genomic DNA. Translation: AAL21909.1.
    RefSeqiNP_461950.1. NC_003197.1.

    Genome annotation databases

    EnsemblBacteriaiAAL21909; AAL21909; STM3033.
    GeneIDi1254556.
    KEGGistm:STM3033.
    PATRICi32384803. VBISalEnt20916_3211.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE006468 Genomic DNA. Translation: AAL21909.1 .
    RefSeqi NP_461950.1. NC_003197.1.

    3D structure databases

    ProteinModelPortali Q8ZM86.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 99287.STM3033.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAL21909 ; AAL21909 ; STM3033 .
    GeneIDi 1254556.
    KEGGi stm:STM3033.
    PATRICi 32384803. VBISalEnt20916_3211.

    Phylogenomic databases

    HOGENOMi HOG000121274.
    KOi K07062.
    OMAi KEMALLV.
    OrthoDBi EOG6ZWJH4.
    PhylomeDBi Q8ZM86.

    Enzyme and pathway databases

    BioCyci SENT99287:GCTI-3053-MONOMER.

    Family and domain databases

    Gene3Di 3.40.50.1010. 1 hit.
    HAMAPi MF_00265. VapC_Nob1.
    InterProi IPR002716. PIN_dom.
    IPR029060. PIN_domain-like.
    IPR022907. VapC_family.
    [Graphical view ]
    Pfami PF01850. PIN. 1 hit.
    [Graphical view ]
    SMARTi SM00670. PINc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF88723. SSF88723. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: LT2 / SGSC1412 / ATCC 700720.
    2. "Ectopic production of VapCs from Enterobacteria inhibits translation and trans-activates YoeB mRNA interferase."
      Winther K.S., Gerdes K.
      Mol. Microbiol. 72:918-930(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION AS A TOXIN, INDUCTION, EXPRESSION IN E.COLI.
      Strain: LT2 / SGSC1412 / ATCC 700720.
    3. "Enteric virulence associated protein VapC inhibits translation by cleavage of initiator tRNA."
      Winther K.S., Gerdes K.
      Proc. Natl. Acad. Sci. U.S.A. 108:7403-7407(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION AS A TOXIN, FUNCTION AS A TRNA ENDONUCLEASE, SUBSTRATE SPECIFICITY, MUTAGENESIS OF ASP-7.
      Strain: LT2 / SGSC1412 / ATCC 700720.

    Entry informationi

    Entry nameiVAPC_SALTY
    AccessioniPrimary (citable) accession number: Q8ZM86
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 28, 2011
    Last sequence update: March 1, 2002
    Last modified: October 1, 2014
    This is version 61 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3