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B8J1X9

- PNP_DESDA

UniProt

B8J1X9 - PNP_DESDA

Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 41 (01 Oct 2014)
      Sequence version 1 (03 Mar 2009)
      Previous versions | rss
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    • Comment

    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 bindingi494 – 4941MagnesiumUniRule annotation
    Metal bindingi500 – 5001MagnesiumUniRule 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

    BioCyciDDES525146:GIWF-54-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:Ddes_0054
    OrganismiDesulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
    Taxonomic identifieri525146 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
    ProteomesiUP000002598: 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 – 743743Polyribonucleotide nucleotidyltransferasePRO_0000381885Add
    BLAST

    Proteomic databases

    PRIDEiB8J1X9.

    Interactioni

    Protein-protein interaction databases

    STRINGi525146.Ddes_0054.

    Structurei

    3D structure databases

    ProteinModelPortaliB8J1X9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini561 – 62060KHUniRule annotationAdd
    BLAST
    Domaini630 – 70475S1 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.

    B8J1X9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSQDIFTPTR VTCQVGGKEI IIESGRMANQ AHGEVWIQCG GTVVLVTVCS    50
    QPLEFDKGFF PLTVEYSEKM YAAGRIPGSF FRREIGRPSE RETLVARLID 100
    RPIRPLFPKG LNEDVQVLAS VISADQENES DVLALTGASA ALMLSPLPFE 150
    GPVAGGRIAR VGGQFVLNPT FEQQAQSDLN IVFAASGDAL TMVEGDARFI 200
    SEDVIIEALE WGRLQILPLV EIQHKLRELC GKPKMNFTPH QDDEALVACV 250
    HELALANGME EALRVPEKMA RKDARKAVKD KVMETLKADP AWAENEAALK 300
    AVSDILGGLE KKLVRARIVN EGTRIDGRDT TTVRPIQIQT GLLPRAHGSA 350
    LFRRGETKSL VVATLGSSTD EQRMDSLTGD VTKRFMLHYN FPPFSVGEVK 400
    PVRVSRREIG HGALAEKSLR PVLPADADFP FTLRVVAETM ESNGSSSMAA 450
    VCGGSLSLMD AGVPVSAPVA GVAMGLIKEG EKFIVLTDIL GDEDALGDMD 500
    FKIAGTAEGV TGVQMDIKIT GLTTEIMRTA MQQAREGRLH ILEEMAKAIA 550
    SPRKELSRYA PQHAEVFVNP DIIRLIIGPG GKNIKAITAA TGASVDIEDS 600
    GRVSIFAPTA EALEKAREMV SYYDQRPDLG KNYNAKVRKI MEIGAIVEVL 650
    PNVEALVHVS QLDVNRVEQP GDVARLGEDM LVKVIEINGD RIRASRKAVL 700
    LEEQGHPWNP EDTARPQRSD RGDRGDRRGD RGGRDRRDRG DRR 743
    Length:743
    Mass (Da):81,064
    Last modified:March 3, 2009 - v1
    Checksum:iC35BF2FD530BA25C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001358 Genomic DNA. Translation: ACL47974.1.
    RefSeqiWP_012623706.1. NC_011883.1.
    YP_002478652.1. NC_011883.1.

    Genome annotation databases

    EnsemblBacteriaiACL47974; ACL47974; Ddes_0054.
    GeneIDi7283705.
    KEGGidds:Ddes_0054.
    PATRICi21733350. VBIDesDes50650_0064.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001358 Genomic DNA. Translation: ACL47974.1 .
    RefSeqi WP_012623706.1. NC_011883.1.
    YP_002478652.1. NC_011883.1.

    3D structure databases

    ProteinModelPortali B8J1X9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 525146.Ddes_0054.

    Proteomic databases

    PRIDEi B8J1X9.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACL47974 ; ACL47974 ; Ddes_0054 .
    GeneIDi 7283705.
    KEGGi dds:Ddes_0054.
    PATRICi 21733350. VBIDesDes50650_0064.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci DDES525146:GIWF-54-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. "Complete sequence of Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774."
      US DOE Joint Genome Institute
      Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Lu M., Kiss H., Meineke L., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L.
      , Kyrpides N., Ovchinnikova G., Hazen T.C.
      Submitted (JAN-2009) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 27774 / DSM 6949.

    Entry informationi

    Entry nameiPNP_DESDA
    AccessioniPrimary (citable) accession number: B8J1X9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 1, 2009
    Last sequence update: March 3, 2009
    Last modified: October 1, 2014
    This is version 41 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