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A4XYD6

- PNP_PSEMY

UniProt

A4XYD6 - PNP_PSEMY

Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Pseudomonas mendocina (strain ymp)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 51 (01 Oct 2014)
      Sequence version 2 (29 Apr 2008)
      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 bindingi488 – 4881MagnesiumUniRule annotation
    Metal bindingi494 – 4941MagnesiumUniRule 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

    Enzyme and pathway databases

    BioCyciPMEN399739:GHR6-3665-MONOMER.

    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:Pmen_3604
    OrganismiPseudomonas mendocina (strain ymp)
    Taxonomic identifieri399739 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
    ProteomesiUP000000229: Chromosome

    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 – 702702Polyribonucleotide nucleotidyltransferasePRO_0000329783Add
    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

    STRINGi399739.Pmen_3604.

    Structurei

    3D structure databases

    ProteinModelPortaliA4XYD6.
    SMRiA4XYD6. Positions 619-693.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini555 – 61460KHUniRule annotationAdd
    BLAST
    Domaini624 – 69269S1 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.
    OrthoDBiEOG6WT8CC.

    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.

    A4XYD6-1 [UniParc]FASTAAdd to Basket

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    MNPVIKQFKF GQSTVTLETG RIARQASGAV LVTVDNDVTV LVTVVGAKTA    50
    DPSKGFFPLS VHYQEKTYAA GKIPGGFFKR EGRPSEKETL TSRLIDRPIR 100
    PLFPEGFMNE VQVVCTVVST SKKTDPDIAS MIGTSAALAV SGIPFNGPIG 150
    AARVAFHPDT GYLLNPNYEQ LKASSLDMVV AGTETAVLMV ESEADELTED 200
    QMLGAVLFAH QEFQAVIQAV KEFAAEAGKP TWNWQAPAAN TPLLDAIRSQ 250
    FGEAISQAYT ITIKQDRYNR LDELREQVIA ALAGEGEGKF AADEVKAAFG 300
    EIEYRTVRQN IVDGKPRIDG RDTRTVRPLK IEVGVLDKTH GSALFTRGET 350
    QALVVATLGT ARDAQLLDTL EGEKKDPFML HYNFPPFSVG ECGRMGGAGR 400
    REIGHGRLAR RGVAAMLPKD DEFPYTIRVV SEITESNGSS SMASVCGASL 450
    ALMDAGVPMK APVAGIAMGL VLEGEKFAVL TDILGDEDHL GDMDFKVAGT 500
    AKGVTALQMD IKIQGITEEI MEQALEQALE ARLNILGQMN QVISQSRTEL 550
    SANAPTMLAM KIDQDKIRDV IGKGGATIRA ICEETKASID IEDDGSIKIF 600
    GETKDAAEAA KQRVLAITAE AEIGKIYVGK VERIVDFGAF VNILPGKDGL 650
    VHISMLSDQR VEKVTDVLKE GQEVKVLVLD VDNRGRIKLS IKDVAAAEAS 700
    GV 702
    Length:702
    Mass (Da):75,496
    Last modified:April 29, 2008 - v2
    Checksum:i50649D1BE23BCD37
    GO

    Sequence cautioni

    The sequence ABP86352.1 differs from that shown. Reason: Erroneous initiation.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000680 Genomic DNA. Translation: ABP86352.1. Different initiation.
    RefSeqiYP_001189084.1. NC_009439.1.

    Genome annotation databases

    EnsemblBacteriaiABP86352; ABP86352; Pmen_3604.
    GeneIDi5106151.
    KEGGipmy:Pmen_3604.
    PATRICi19913832. VBIPseMen131592_3653.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000680 Genomic DNA. Translation: ABP86352.1 . Different initiation.
    RefSeqi YP_001189084.1. NC_009439.1.

    3D structure databases

    ProteinModelPortali A4XYD6.
    SMRi A4XYD6. Positions 619-693.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 399739.Pmen_3604.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABP86352 ; ABP86352 ; Pmen_3604 .
    GeneIDi 5106151.
    KEGGi pmy:Pmen_3604.
    PATRICi 19913832. VBIPseMen131592_3653.

    Phylogenomic databases

    eggNOGi COG1185.
    HOGENOMi HOG000218326.
    KOi K00962.
    OrthoDBi EOG6WT8CC.

    Enzyme and pathway databases

    BioCyci PMEN399739:GHR6-3665-MONOMER.

    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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ymp.

    Entry informationi

    Entry nameiPNP_PSEMY
    AccessioniPrimary (citable) accession number: A4XYD6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 29, 2008
    Last sequence update: April 29, 2008
    Last modified: October 1, 2014
    This is version 51 of the entry and version 2 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