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B1YTR1

- PNP_BURA4

UniProt

B1YTR1 - PNP_BURA4

Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Burkholderia ambifaria (strain MC40-6)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 48 (01 Oct 2014)
      Sequence version 1 (20 May 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 bindingi493 – 4931MagnesiumUniRule annotation
    Metal bindingi499 – 4991MagnesiumUniRule 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

    BioCyciBAMB398577:GH38-2236-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:BamMC406_2170
    OrganismiBurkholderia ambifaria (strain MC40-6)
    Taxonomic identifieri398577 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderiaBurkholderia cepacia complex
    ProteomesiUP000001680: Chromosome 1

    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 – 714714Polyribonucleotide nucleotidyltransferasePRO_1000147894Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi398577.BamMC406_2170.

    Structurei

    3D structure databases

    ProteinModelPortaliB1YTR1.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini560 – 61960KHUniRule annotationAdd
    BLAST
    Domaini629 – 69769S1 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.
    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.

    B1YTR1-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSMFNKVVKE FQWGQHKVRL ETGEVARQAS GAVIVDVEDT VVLATVVGAK    50
    SAKPGQDFFP LTVDYLEKTY SAGKIPGGFF RREGRPSEHE TLTSRLIDRP 100
    LRPLFPEGFY NEVQVVIHVL SVNPEIPADI PALIGASAAL AVSGLPFNGP 150
    VGAARVAYID NAYVLNPTRD QLKASSLDLV VAGTERAVLM VESEADQLPE 200
    DVMLGAVVFG HEQMQTAIDA IHELVREGGK PEWDWQPAPK NEALIARVTE 250
    LAHGDLLAAY QLRDKQARST KLKEVYAATS AKLEEDAQAA GTVAADKATV 300
    GNVLFDIEAK IVRSQILNGE PRIDGRDTRT VRPIEIRTGV LPRTHGSALF 350
    TRGETQALVV ATLGTKGDEQ IIDALEGEYR ERFMLHYNMP PFATGETGRV 400
    GSPKRREIGH GRLAKRALVK CLPSADEFGY SIRVVSEITE SNGSSSMASV 450
    CGGCLALMDA GVPMKAHVAG IAMGLILEGN KFAVLTDILG DEDHLGDMDF 500
    KVAGTEQGVT ALQMDIKIQG ITKEIMQVAL AQAKEGRMHI LGKMTSAVSG 550
    ANTQLSEFAP RMITIKINPE KIRDVIGKGG SVIRALTEET GTTIDISDDG 600
    VVTIASTSSE GMAEAKKRIE NITVEIEVGQ VYEGTVLKLL DFGAIVNLLP 650
    GKDGLLHISE IVNERVKDIN DYLKEGQQVK VKVIQTDEKG RVRLSAKALL 700
    NEAAASQSDT PPQQ 714
    Length:714
    Mass (Da):77,008
    Last modified:May 20, 2008 - v1
    Checksum:i113B5BE21B149D57
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001025 Genomic DNA. Translation: ACB64649.1.
    RefSeqiWP_011657486.1. NC_010551.1.
    YP_001808865.1. NC_010551.1.

    Genome annotation databases

    EnsemblBacteriaiACB64649; ACB64649; BamMC406_2170.
    GeneIDi6177701.
    KEGGibac:BamMC406_2170.
    PATRICi19033851. VBIBurAmb82852_2227.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001025 Genomic DNA. Translation: ACB64649.1 .
    RefSeqi WP_011657486.1. NC_010551.1.
    YP_001808865.1. NC_010551.1.

    3D structure databases

    ProteinModelPortali B1YTR1.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 398577.BamMC406_2170.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACB64649 ; ACB64649 ; BamMC406_2170 .
    GeneIDi 6177701.
    KEGGi bac:BamMC406_2170.
    PATRICi 19033851. VBIBurAmb82852_2227.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci BAMB398577:GH38-2236-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 chromosome 1 of Burkholderia ambifaria MC40-6."
      Copeland A., Lucas S., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Lang D., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Lykidis A.
      , Ramette A., Konstantinidis K., Tiedje J., Richardson P.
      Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: MC40-6.

    Entry informationi

    Entry nameiPNP_BURA4
    AccessioniPrimary (citable) accession number: B1YTR1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: May 20, 2008
    Last modified: October 1, 2014
    This is version 48 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