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B6JCR8

- PNP_OLICO

UniProt

B6JCR8 - PNP_OLICO

Protein

Polyribonucleotide nucleotidyltransferase

Gene

pnp

Organism
Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 43 (01 Oct 2014)
      Sequence version 1 (16 Dec 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 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

    Enzyme and pathway databases

    BioCyciOCAR504832:GJPZ-31-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:OCAR_4503, OCA5_c00310
    OrganismiOligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5)
    Taxonomic identifieri504832 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeOligotropha
    ProteomesiUP000001678: Chromosome, UP000007730: 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 – 714714Polyribonucleotide nucleotidyltransferasePRO_1000192477Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi504832.OCAR_4503.

    Structurei

    3D structure databases

    ProteinModelPortaliB6JCR8.
    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.
    OMAiHGNFKSN.
    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]
    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.
    PROSITEiPS50084. KH_TYPE_1. 1 hit.
    PS50126. S1. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    B6JCR8-1 [UniParc]FASTAAdd to Basket

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    MFNTHSVELD WGGRPLKLET GKVARQADGA VIATYGETVV MATVVSAKTP    50
    KEGIDFLPLT VNYQEKTYAA GRIPGGYFKR EGRPSEKETL VSRLIDRPIR 100
    PLFADGYRCD TQVIVTTLSH DMENDPDIVA MVAASAALTL SGVPFMGPVG 150
    AARVAFVNNE FILNPTLDEM VDTQLDLVVA GTATAVLMVE SEAKELPEEI 200
    MLGAVMFGHK HFQPVLKAII ELAEQAAKEP RDVVATVNAD LEKEILGIVE 250
    QDLRKAYSIP VKQDRYAAVG AAKDKVLEHF FPEGIEPRYE KLRVLDVFKD 300
    LEAKIVRWNI LDTGRRIDGR DLKTVRPIVA EVGVLPRAHG SALFTRGETQ 350
    ALVVTTLGTG EDEQYIDSLA GTYKETFLLH YNFPPFSVGE TGRIGSPGRR 400
    EIGHGKLAWR AIHPVLPAHH EFPYTLRVVS EITESNGSSS MATVCGSSLA 450
    LMDAGVPLKR PTAGIAMGLI LEGDRFAVLS DILGDEDHLG DMDFKVAGTE 500
    KGVTSLQMDI KIAGITEEIM KVALTQAKDG RMHILGEMAK ALTAARAELG 550
    EHAPRIEVLQ IPTDKIRDVI GTGGKVIREI VEKTGAKINI EDDGTVKVAS 600
    ANGESIRAAI KWIKSITSEP EVGQIYDGTV VKVMEFGAFV NFFGPKDGLV 650
    HISQLAASRV QKTSDVVKEG DKVKVKLLGL DDRGKVRLSM KAVDQTTGED 700
    LEAKQKAENA PAAE 714
    Length:714
    Mass (Da):77,474
    Last modified:December 16, 2008 - v1
    Checksum:i18034AC38A1E1E03
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001196 Genomic DNA. Translation: ACI91648.1.
    CP002826 Genomic DNA. Translation: AEI04765.1.
    RefSeqiYP_002287513.1. NC_011386.1.
    YP_004631006.1. NC_015684.1.

    Genome annotation databases

    EnsemblBacteriaiACI91648; ACI91648; OCAR_4503.
    AEI04765; AEI04765; OCA5_c00310.
    GeneIDi10845163.
    6993256.
    KEGGioca:OCAR_4503.
    ocg:OCA5_c00310.
    PATRICi22802987. VBIOliCar134280_0479.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001196 Genomic DNA. Translation: ACI91648.1 .
    CP002826 Genomic DNA. Translation: AEI04765.1 .
    RefSeqi YP_002287513.1. NC_011386.1.
    YP_004631006.1. NC_015684.1.

    3D structure databases

    ProteinModelPortali B6JCR8.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 504832.OCAR_4503.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACI91648 ; ACI91648 ; OCAR_4503 .
    AEI04765 ; AEI04765 ; OCA5_c00310 .
    GeneIDi 10845163.
    6993256.
    KEGGi oca:OCAR_4503.
    ocg:OCA5_c00310.
    PATRICi 22802987. VBIOliCar134280_0479.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci OCAR504832:GJPZ-31-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 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.
    PROSITEi PS50084. KH_TYPE_1. 1 hit.
    PS50126. S1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Genome sequence of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5T."
      Paul D., Bridges S., Burgess S.C., Dandass Y., Lawrence M.L.
      J. Bacteriol. 190:5531-5532(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 49405 / DSM 1227 / OM5.
    2. "Complete genome sequences of the chemolithoautotrophic Oligotropha carboxidovorans strains OM4 and OM5."
      Volland S., Rachinger M., Strittmatter A., Daniel R., Gottschalk G., Meyer O.
      J. Bacteriol. 193:5043-5043(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 49405 / DSM 1227 / OM5.

    Entry informationi

    Entry nameiPNP_OLICO
    AccessioniPrimary (citable) accession number: B6JCR8
    Secondary accession number(s): F8BZN1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: December 16, 2008
    Last modified: October 1, 2014
    This is version 43 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