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A5F913

- PNP_VIBC3

UniProt

A5F913 - PNP_VIBC3

Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 54 (01 Oct 2014)
      Sequence version 1 (12 Jun 2007)
      Previous versions | rss
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    Functioni

    Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'-direction.UniRule annotation

    Catalytic activityi

    RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate.UniRule annotation

    Cofactori

    Magnesium.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi487 – 4871MagnesiumUniRule annotation
    Metal bindingi493 – 4931MagnesiumUniRule annotation

    GO - Molecular functioni

    1. 3'-5'-exoribonuclease activity Source: InterPro
    2. magnesium ion binding Source: UniProtKB-HAMAP
    3. polyribonucleotide nucleotidyltransferase activity Source: UniProtKB-HAMAP
    4. RNA binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. mRNA catabolic process Source: UniProtKB-HAMAP
    2. RNA processing Source: InterPro

    Keywords - Molecular functioni

    Nucleotidyltransferase, Transferase

    Keywords - Ligandi

    Magnesium, Metal-binding, RNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Polyribonucleotide nucleotidyltransferaseUniRule annotation (EC:2.7.7.8UniRule annotation)
    Alternative name(s):
    Polynucleotide phosphorylaseUniRule annotation
    Short name:
    PNPaseUniRule annotation
    Gene namesi
    Name:pnpUniRule annotation
    Ordered Locus Names:VC0395_A0178, VC395_0664
    OrganismiVibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
    Taxonomic identifieri345073 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000000249: Chromosome 2, UP000001630: Chromosome I

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 712712Polyribonucleotide nucleotidyltransferasePRO_0000329928Add
    BLAST

    Interactioni

    Subunit structurei

    Component of the RNA degradosome, which is a multiprotein complex involved in RNA processing and mRNA degradation.UniRule annotation

    Protein-protein interaction databases

    STRINGi345073.VC0395_A0178.

    Structurei

    3D structure databases

    ProteinModelPortaliA5F913.
    SMRiA5F913. Positions 618-693.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini554 – 61360KHUniRule annotationAdd
    BLAST
    Domaini623 – 69169S1 motifUniRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the polyribonucleotide nucleotidyltransferase family.UniRule annotation
    Contains 1 KH domain.UniRule annotation
    Contains 1 S1 motif domain.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1185.
    HOGENOMiHOG000218326.
    KOiK00962.
    OMAiPRWDWVA.

    Family and domain databases

    Gene3Di1.10.10.400. 1 hit.
    2.40.50.140. 1 hit.
    3.30.1370.10. 1 hit.
    3.30.230.70. 2 hits.
    HAMAPiMF_01595. PNPase.
    InterProiIPR001247. ExoRNase_PH_dom1.
    IPR015847. ExoRNase_PH_dom2.
    IPR004087. KH_dom.
    IPR004088. KH_dom_type_1.
    IPR012340. NA-bd_OB-fold.
    IPR012162. PNPase.
    IPR027408. PNPase/RNase_PH_dom.
    IPR015848. PNPase_PH_RNA-bd_bac/org-type.
    IPR003029. Rbsml_prot_S1_RNA-bd_dom.
    IPR020568. Ribosomal_S5_D2-typ_fold.
    IPR022967. RNA-binding_domain_S1.
    [Graphical view]
    PANTHERiPTHR11252. PTHR11252. 1 hit.
    PfamiPF00013. KH_1. 1 hit.
    PF03726. PNPase. 1 hit.
    PF01138. RNase_PH. 2 hits.
    PF03725. RNase_PH_C. 2 hits.
    PF00575. S1. 1 hit.
    [Graphical view]
    PIRSFiPIRSF005499. PNPase. 1 hit.
    SMARTiSM00322. KH. 1 hit.
    SM00316. S1. 1 hit.
    [Graphical view]
    SUPFAMiSSF50249. SSF50249. 1 hit.
    SSF54211. SSF54211. 2 hits.
    SSF54791. SSF54791. 1 hit.
    SSF55666. SSF55666. 2 hits.
    TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
    PROSITEiPS50084. KH_TYPE_1. 1 hit.
    PS50126. S1. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    A5F913-1 [UniParc]FASTAAdd to Basket

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    MFEKPVVKTF QYGNHTVTLE TGVMARQATA AVMATMDDTA VFVSVVGKKE    50
    AVVGQDFFPL TVNYQERTYA AGKIPGGFFK REGRPSEGET LIARLIDRPI 100
    RPLFPDGFTN EVQVIATVVS VNPDVQPDII SMIGTSAALA ISGLPFNGPI 150
    GAARVGHIDG QLVLNPSEKE LKQSRLDLVV AGTDNAVLMV ESEAQILTEE 200
    EMLAAVVFGH DQQQAVIKAI NEFAAEVATP AWEWVAPAEN TELKAKVAAL 250
    AETRLVEAYQ ITEKMARYDR IHAISSEVTA ALLAENEALD TKEIHTIFHD 300
    LEKTVVRRSI IAGNPRIDGR EKDMVRALDV RTGVLPRTHG SALFTRGETQ 350
    ALVTATLGTQ RDAQIIDELT GEKKDHFLLH YNFPPYCVGE TGFVGSPKRR 400
    EIGHGRLAKR GIAAVMPSPE EFPYTVRVVS EITESNGSSS MASVCGSSLA 450
    LMDAGVPIKA SVAGIAMGLV KEENDFVVLS DILGDEDHLG DMDFKVAGTA 500
    TGVTALQMDI KIEGITKEIM QIALNQAKGA RLHILSVMDQ AISAARSDIS 550
    EFAPRIHTMK ISVEKIKDVI GKGGAVIRQL TEETGTTIEI EDDGTIKIAA 600
    TDGDQAKEAI RRIQEITAEV EVGVIYTGKV ARLADFGAFV TILPGKDGLV 650
    HISQIADKRV EKVSDYLTEG QEVQVKVLEI DRQGRVRLSM KEAVETSDAA 700
    AEVAPQAAPQ AE 712
    Length:712
    Mass (Da):76,840
    Last modified:June 12, 2007 - v1
    Checksum:i76377F86BCF11F30
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000627 Genomic DNA. Translation: ABQ21149.1.
    CP001235 Genomic DNA. Translation: ACP08682.1.
    RefSeqiYP_001216141.1. NC_009457.1.
    YP_002818918.1. NC_012582.1.

    Genome annotation databases

    EnsemblBacteriaiABQ21149; ABQ21149; VC0395_A0178.
    ACP08682; ACP08682; VC395_0664.
    GeneIDi5135826.
    7774688.
    KEGGivco:VC0395_A0178.
    vcr:VC395_0664.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000627 Genomic DNA. Translation: ABQ21149.1 .
    CP001235 Genomic DNA. Translation: ACP08682.1 .
    RefSeqi YP_001216141.1. NC_009457.1.
    YP_002818918.1. NC_012582.1.

    3D structure databases

    ProteinModelPortali A5F913.
    SMRi A5F913. Positions 618-693.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 345073.VC0395_A0178.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABQ21149 ; ABQ21149 ; VC0395_A0178 .
    ACP08682 ; ACP08682 ; VC395_0664 .
    GeneIDi 5135826.
    7774688.
    KEGGi vco:VC0395_A0178.
    vcr:VC395_0664.

    Phylogenomic databases

    eggNOGi COG1185.
    HOGENOMi HOG000218326.
    KOi K00962.
    OMAi PRWDWVA.

    Family and domain databases

    Gene3Di 1.10.10.400. 1 hit.
    2.40.50.140. 1 hit.
    3.30.1370.10. 1 hit.
    3.30.230.70. 2 hits.
    HAMAPi MF_01595. PNPase.
    InterProi IPR001247. ExoRNase_PH_dom1.
    IPR015847. ExoRNase_PH_dom2.
    IPR004087. KH_dom.
    IPR004088. KH_dom_type_1.
    IPR012340. NA-bd_OB-fold.
    IPR012162. PNPase.
    IPR027408. PNPase/RNase_PH_dom.
    IPR015848. PNPase_PH_RNA-bd_bac/org-type.
    IPR003029. Rbsml_prot_S1_RNA-bd_dom.
    IPR020568. Ribosomal_S5_D2-typ_fold.
    IPR022967. RNA-binding_domain_S1.
    [Graphical view ]
    PANTHERi PTHR11252. PTHR11252. 1 hit.
    Pfami PF00013. KH_1. 1 hit.
    PF03726. PNPase. 1 hit.
    PF01138. RNase_PH. 2 hits.
    PF03725. RNase_PH_C. 2 hits.
    PF00575. S1. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF005499. PNPase. 1 hit.
    SMARTi SM00322. KH. 1 hit.
    SM00316. S1. 1 hit.
    [Graphical view ]
    SUPFAMi SSF50249. SSF50249. 1 hit.
    SSF54211. SSF54211. 2 hits.
    SSF54791. SSF54791. 1 hit.
    SSF55666. SSF55666. 2 hits.
    TIGRFAMsi TIGR03591. polynuc_phos. 1 hit.
    PROSITEi PS50084. KH_TYPE_1. 1 hit.
    PS50126. S1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Heidelberg J.
      Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 39541 / Classical Ogawa 395 / O395.
    2. "A recalibrated molecular clock and independent origins for the cholera pandemic clones."
      Feng L., Reeves P.R., Lan R., Ren Y., Gao C., Zhou Z., Ren Y., Cheng J., Wang W., Wang J., Qian W., Li D., Wang L.
      PLoS ONE 3:E4053-E4053(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 39541 / Classical Ogawa 395 / O395.

    Entry informationi

    Entry nameiPNP_VIBC3
    AccessioniPrimary (citable) accession number: A5F913
    Secondary accession number(s): C3LXV8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 29, 2008
    Last sequence update: June 12, 2007
    Last modified: October 1, 2014
    This is version 54 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

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3