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B3DPX0

- PNP_BIFLD

UniProt

B3DPX0 - PNP_BIFLD

Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Bifidobacterium longum (strain DJO10A)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 46 (01 Oct 2014)
      Sequence version 1 (22 Jul 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 bindingi521 – 5211MagnesiumUniRule annotation
    Metal bindingi527 – 5271MagnesiumUniRule 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

    BioCyciBLON205913:GJB4-1722-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:BLD_1664
    OrganismiBifidobacterium longum (strain DJO10A)
    Taxonomic identifieri205913 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeBifidobacterialesBifidobacteriaceaeBifidobacterium
    ProteomesiUP000002419: 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 – 913913Polyribonucleotide nucleotidyltransferasePRO_1000147888Add
    BLAST

    Proteomic databases

    PRIDEiB3DPX0.

    Interactioni

    Protein-protein interaction databases

    STRINGi205913.BLD_1664.

    Structurei

    3D structure databases

    ProteinModelPortaliB3DPX0.
    SMRiB3DPX0. Positions 5-623.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini587 – 64660KHUniRule annotationAdd
    BLAST
    Domaini658 – 73073S1 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.
    IPR014069. pppGpp_PNP.
    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. 1 hit.
    PF00575. S1. 1 hit.
    [Graphical view]
    SMARTiSM00322. KH. 1 hit.
    SM00316. S1. 1 hit.
    [Graphical view]
    SUPFAMiSSF46915. SSF46915. 1 hit.
    SSF50249. SSF50249. 1 hit.
    SSF54211. SSF54211. 2 hits.
    SSF54791. SSF54791. 1 hit.
    SSF55666. SSF55666. 2 hits.
    TIGRFAMsiTIGR03591. polynuc_phos. 1 hit.
    TIGR02696. pppGpp_PNP. 1 hit.
    PROSITEiPS50084. KH_TYPE_1. 1 hit.
    PS50126. S1. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    B3DPX0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MEGPEIKAVE AVIDNGSFGK RTLRFETGRL AQQADGAVAA YLDDDSMILS    50
    TTTAGSSPKE NYDFFPLTVD VEEKMYAAGK IPGSFFRREG RPSSEAILAC 100
    RIIDRPLRPL FPHTLRNEVQ VVETVLAVNP DDAYDVIALN AASASTMISG 150
    LPFEGPVSGV RLALIDGQWV AFPRWSERER AVFEIVVAGR VIENGDVAIA 200
    MIEAGAGKNA WHLIYDEGQT KPDEEVVAGG LEAAKPFIKV ICEAQDELKK 250
    IAAKETKEFQ LFPEYTDELY ARIDEIAHKD LDEALSIAEK LPRQDRIHEI 300
    KEHVREVLAD EFTDMDDAEK DKELGNAFKE LQRQIVRRRI LTEDYRIDGR 350
    GLRDIRTLSA EVDIVPRVHG SALFQRGETQ ILGVTTLNML KMEQQIDALS 400
    GPQSKRYMHN YEMPPYSTGE TGRVGSPKRR EIGHGALAEK ALVPVLPSRE 450
    EFPYAIRQVS EAIGSNGSTS MGSVCASTLS LLAAGVPLKA PVAGIAMGLV 500
    SGDVDGKHIF KTLTDILGAE DAFGDMDFKV AGTSEFITAL QLDTKLDGIP 550
    ADILAAALQQ AKEARATILE VINECIDGPA EMSEFAPRII TTSVPVEKIG 600
    EVIGPKGKMI NQIQEDTGAE IAIEDDGTVF ISSEGGEAAE KAKAIIDQIA 650
    NPHVPEAGET YNGKVVKTTS FGAFVNLTPG TDGLLHISQI RNLANGERID 700
    AVEDVLKEGD TVEVIVQGVD DRGKISLAIP GFEDQENNAR PSRGDRDDRR 750
    GGRGRGDRDD RRGGRGRRSE RDDRDFDDRD DRPRRRRSDD FEDDYDDRPR 800
    RRRSDDRDFD RDDRDDDRPR RRRSADRDFD DRDDRDARDS RDDDRPRRRR 850
    SSDRDDRGDR DDRRGGSRGR GRGSDRNPRY ATDDNYDDYR ADREERTERP 900
    RRRVRRDFDP FED 913
    Length:913
    Mass (Da):101,847
    Last modified:July 22, 2008 - v1
    Checksum:i44BF8295382F2AFB
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000605 Genomic DNA. Translation: ACD99109.1.
    RefSeqiYP_001955607.1. NC_010816.1.

    Genome annotation databases

    EnsemblBacteriaiACD99109; ACD99109; BLD_1664.
    GeneIDi6364558.
    KEGGiblj:BLD_1664.
    PATRICi21116366. VBIBifLon134794_1692.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000605 Genomic DNA. Translation: ACD99109.1 .
    RefSeqi YP_001955607.1. NC_010816.1.

    3D structure databases

    ProteinModelPortali B3DPX0.
    SMRi B3DPX0. Positions 5-623.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 205913.BLD_1664.

    Proteomic databases

    PRIDEi B3DPX0.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACD99109 ; ACD99109 ; BLD_1664 .
    GeneIDi 6364558.
    KEGGi blj:BLD_1664.
    PATRICi 21116366. VBIBifLon134794_1692.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci BLON205913:GJB4-1722-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.
    IPR014069. pppGpp_PNP.
    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. 1 hit.
    PF00575. S1. 1 hit.
    [Graphical view ]
    SMARTi SM00322. KH. 1 hit.
    SM00316. S1. 1 hit.
    [Graphical view ]
    SUPFAMi SSF46915. SSF46915. 1 hit.
    SSF50249. SSF50249. 1 hit.
    SSF54211. SSF54211. 2 hits.
    SSF54791. SSF54791. 1 hit.
    SSF55666. SSF55666. 2 hits.
    TIGRFAMsi TIGR03591. polynuc_phos. 1 hit.
    TIGR02696. pppGpp_PNP. 1 hit.
    PROSITEi PS50084. KH_TYPE_1. 1 hit.
    PS50126. S1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth."
      Lee J.H., Karamychev V.N., Kozyavkin S.A., Mills D., Pavlov A.R., Pavlova N.V., Polouchine N.N., Richardson P.M., Shakhova V.V., Slesarev A.I., Weimer B., O'Sullivan D.J.
      BMC Genomics 9:247-247(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DJO10A.

    Entry informationi

    Entry nameiPNP_BIFLD
    AccessioniPrimary (citable) accession number: B3DPX0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: July 22, 2008
    Last modified: October 1, 2014
    This is version 46 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