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B8DPB3

- RNC_DESVM

UniProt

B8DPB3 - RNC_DESVM

Protein

Ribonuclease 3

Gene

rnc

Organism
Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 38 (01 Oct 2014)
      Sequence version 1 (03 Mar 2009)
      Previous versions | rss
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    Functioni

    Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism.UniRule annotation

    Catalytic activityi

    Endonucleolytic cleavage to 5'-phosphomonoester.UniRule annotation

    Cofactori

    Mg2+.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi43 – 431MagnesiumUniRule annotation
    Active sitei47 – 471UniRule annotation
    Metal bindingi116 – 1161MagnesiumUniRule annotation
    Active sitei119 – 1191UniRule annotation
    Metal bindingi119 – 1191MagnesiumUniRule annotation

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. ribonuclease III activity Source: UniProtKB-HAMAP
    3. rRNA binding Source: UniProtKB-KW

    GO - Biological processi

    1. mRNA processing Source: UniProtKB-HAMAP
    2. rRNA catabolic process Source: InterPro
    3. rRNA processing Source: UniProtKB-HAMAP
    4. tRNA processing Source: UniProtKB-KW

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease

    Keywords - Biological processi

    mRNA processing, rRNA processing, tRNA processing

    Keywords - Ligandi

    Magnesium, Metal-binding, RNA-binding, rRNA-binding

    Enzyme and pathway databases

    BioCyciDVUL883:GCJ5-256-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribonuclease 3UniRule annotation (EC:3.1.26.3UniRule annotation)
    Alternative name(s):
    Ribonuclease IIIUniRule annotation
    Short name:
    RNase IIIUniRule annotation
    Gene namesi
    Name:rncUniRule annotation
    Ordered Locus Names:DvMF_0243
    OrganismiDesulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
    Taxonomic identifieri883 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
    ProteomesiUP000001361: 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 – 230230Ribonuclease 3PRO_1000194421Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi883.DvMF_0243.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini2 – 130129RNase IIIUniRule annotationAdd
    BLAST
    Domaini157 – 22670DRBMUniRule annotationAdd
    BLAST

    Sequence similaritiesi

    Contains 1 DRBM (double-stranded RNA-binding) domain.UniRule annotation
    Contains 1 RNase III domain.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0571.
    HOGENOMiHOG000246808.
    KOiK03685.
    OMAiEVECEER.
    OrthoDBiEOG6T1WVS.

    Family and domain databases

    Gene3Di1.10.1520.10. 1 hit.
    3.30.160.20. 1 hit.
    HAMAPiMF_00104. RNase_III.
    InterProiIPR014720. dsRNA-bd_dom.
    IPR011907. RNase_III.
    IPR000999. RNase_III_dom.
    [Graphical view]
    PANTHERiPTHR11207. PTHR11207. 1 hit.
    PfamiPF00035. dsrm. 1 hit.
    PF14622. Ribonucleas_3_3. 1 hit.
    [Graphical view]
    SMARTiSM00358. DSRM. 1 hit.
    SM00535. RIBOc. 1 hit.
    [Graphical view]
    SUPFAMiSSF69065. SSF69065. 1 hit.
    TIGRFAMsiTIGR02191. RNaseIII. 1 hit.
    PROSITEiPS50137. DS_RBD. 1 hit.
    PS00517. RNASE_3_1. 1 hit.
    PS50142. RNASE_3_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    B8DPB3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MFEKLQSDIH YAFNDAGLLA TAMTHSSWAN EQQEHVEHNE RLEFLGDAVL    50
    ELCVSEELFA RFPGAREGDL TRMRARLVSK PALAELARDL QLELYLRLGR 100
    GEESQGGRER SSLLSDALEA MLGAVFLDGG YERARAVVRH VLAARWPCDA 150
    DGKRSKDYKS RLQELTQSLF RERPVYALMG SSGPEHEKRF EVRLTLPDGT 200
    VFTAIGPSVK RAEQMAAGLA LKNLESRSDG 230
    Length:230
    Mass (Da):25,706
    Last modified:March 3, 2009 - v1
    Checksum:i8326B77C27FFF2A3
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001197 Genomic DNA. Translation: ACL07200.1.
    RefSeqiWP_012611394.1. NC_011769.1.
    YP_002434668.1. NC_011769.1.

    Genome annotation databases

    EnsemblBacteriaiACL07200; ACL07200; DvMF_0243.
    GeneIDi7172123.
    KEGGidvm:DvMF_0243.
    PATRICi21770391. VBIDesVul86729_0251.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001197 Genomic DNA. Translation: ACL07200.1 .
    RefSeqi WP_012611394.1. NC_011769.1.
    YP_002434668.1. NC_011769.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 883.DvMF_0243.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACL07200 ; ACL07200 ; DvMF_0243 .
    GeneIDi 7172123.
    KEGGi dvm:DvMF_0243.
    PATRICi 21770391. VBIDesVul86729_0251.

    Phylogenomic databases

    eggNOGi COG0571.
    HOGENOMi HOG000246808.
    KOi K03685.
    OMAi EVECEER.
    OrthoDBi EOG6T1WVS.

    Enzyme and pathway databases

    BioCyci DVUL883:GCJ5-256-MONOMER.

    Family and domain databases

    Gene3Di 1.10.1520.10. 1 hit.
    3.30.160.20. 1 hit.
    HAMAPi MF_00104. RNase_III.
    InterProi IPR014720. dsRNA-bd_dom.
    IPR011907. RNase_III.
    IPR000999. RNase_III_dom.
    [Graphical view ]
    PANTHERi PTHR11207. PTHR11207. 1 hit.
    Pfami PF00035. dsrm. 1 hit.
    PF14622. Ribonucleas_3_3. 1 hit.
    [Graphical view ]
    SMARTi SM00358. DSRM. 1 hit.
    SM00535. RIBOc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF69065. SSF69065. 1 hit.
    TIGRFAMsi TIGR02191. RNaseIII. 1 hit.
    PROSITEi PS50137. DS_RBD. 1 hit.
    PS00517. RNASE_3_1. 1 hit.
    PS50142. RNASE_3_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete sequence of Desulfovibrio vulgaris str. 'Miyazaki F'."
      Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Hazen T.C., Richardson P.
      Submitted (OCT-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Miyazaki F / DSM 19637.

    Entry informationi

    Entry nameiRNC_DESVM
    AccessioniPrimary (citable) accession number: B8DPB3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: March 3, 2009
    Last modified: October 1, 2014
    This is version 38 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