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P0CAP6

- RIR2_EBVB9

UniProt

P0CAP6 - RIR2_EBVB9

Protein

Ribonucleoside-diphosphate reductase small chain

Gene

BaRF1

Organism
Epstein-Barr virus (strain B95-8) (HHV-4) (Human herpesvirus 4)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 36 (01 Oct 2014)
      Sequence version 1 (26 May 2009)
      Previous versions | rss
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    Functioni

    Ribonucleoside-diphosphate reductase holoenzyme provides the precursors necessary for viral DNA synthesis. Allows virus growth in non-dividing cells, as well as reactivation from latency in infected hosts. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides By similarity.By similarity

    Catalytic activityi

    2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin.PROSITE-ProRule annotation

    Cofactori

    Binds 2 iron ions per subunit.1 Publication

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi61 – 611Iron 1
    Metal bindingi91 – 911Iron 1
    Metal bindingi91 – 911Iron 2
    Metal bindingi94 – 941Iron 1
    Active sitei98 – 9811 PublicationPROSITE-ProRule annotation
    Metal bindingi154 – 1541Iron 2
    Metal bindingi188 – 1881Iron 2
    Metal bindingi191 – 1911Iron 2

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor Source: UniProtKB-EC

    GO - Biological processi

    1. deoxyribonucleoside diphosphate metabolic process Source: InterPro
    2. DNA replication Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    DNA replication

    Keywords - Ligandi

    Iron, Metal-binding

    Enzyme and pathway databases

    UniPathwayiUPA00326.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribonucleoside-diphosphate reductase small chain (EC:1.17.4.1)
    Alternative name(s):
    Ribonucleotide reductase 38 kDa subunit
    Ribonucleotide reductase small subunit
    Gene namesi
    ORF Names:BaRF1
    OrganismiEpstein-Barr virus (strain B95-8) (HHV-4) (Human herpesvirus 4)
    Taxonomic identifieri10377 [NCBI]
    Taxonomic lineageiVirusesdsDNA viruses, no RNA stageHerpesviralesHerpesviridaeGammaherpesvirinaeLymphocryptovirus
    Virus hostiHomo sapiens (Human) [TaxID: 9606]
    ProteomesiUP000007640: Genome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 302302Ribonucleoside-diphosphate reductase small chainPRO_0000190502Add
    BLAST

    Interactioni

    Subunit structurei

    Heterotetramer composed of a homodimer of the large subunit BORF2 (R1) and a homodimer of the small subunit (R2). Larger multisubunit protein complex are also active, composed of (R1)n(R2)n By similarity.By similarity

    Protein-protein interaction databases

    IntActiP0CAP6. 6 interactions.

    Structurei

    Secondary structure

    1
    302
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi11 – 2313
    Helixi27 – 293
    Helixi33 – 386
    Helixi39 – 413
    Helixi44 – 7229
    Helixi78 – 10528
    Turni106 – 1083
    Helixi110 – 12112
    Helixi124 – 1263
    Helixi127 – 13913
    Helixi143 – 15513
    Turni156 – 1583
    Helixi159 – 17113
    Helixi175 – 20228
    Helixi205 – 2073
    Helixi211 – 23222
    Turni233 – 2353
    Helixi241 – 25818

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4A58X-ray1.68A/B1-302[»]
    4A5CX-ray2.01A/B1-302[»]
    4A5DX-ray1.79A/B1-302[»]
    4A5EX-ray2.01A/B1-302[»]
    4A5FX-ray2.14A/B1-302[»]
    4A5HX-ray1.85A/B1-302[»]
    4A5IX-ray2.05A/B1-302[»]
    4A5JX-ray1.88A/B1-302[»]
    ProteinModelPortaliP0CAP6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Family and domain databases

    Gene3Di1.10.620.20. 1 hit.
    InterProiIPR009078. Ferritin-like_SF.
    IPR012348. RNR-rel.
    IPR000358. RNR_small.
    [Graphical view]
    PANTHERiPTHR23409. PTHR23409. 1 hit.
    PfamiPF00268. Ribonuc_red_sm. 1 hit.
    [Graphical view]
    SUPFAMiSSF47240. SSF47240. 1 hit.
    PROSITEiPS00368. RIBORED_SMALL. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P0CAP6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSKLLYVRDH EGFACLTVET HRNRWFAAHI VLTKDCGCLK LLNERDLEFY    50
    KFLFTFLAMA EKLVNFNIDE LVTSFESHDI DHYYTEQKAM ENVHGETYAN 100
    ILNMLFDGDR AAMNAYAEAI MADEALQAKI SWLRDKVAAA VTLPEKILVF 150
    LLIEGIFFIS SFYSIALLRV RGLMPGICLA NNYISRDELL HTRAASLLYN 200
    SMTAKADRPR ATWIQELFRT AVEVETAFIE ARGEGVTLVD VRAIKQFLEA 250
    TADRILGDIG QAPLYGTPPP KDCPLTYMTS IKQTNFFEQE SSDYTMLVVD 300
    DL 302
    Length:302
    Mass (Da):34,359
    Last modified:May 26, 2009 - v1
    Checksum:i473BF0BDFB7F0637
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti122 – 1221A → T no nucleotide entry (PubMed:22824004)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    V01555 Genomic DNA. Translation: CAA24843.1.
    AJ507799 Genomic DNA. Translation: CAD53406.1.
    PIRiA00530. WMBE12.
    RefSeqiYP_401656.1. NC_007605.1.

    Genome annotation databases

    GeneIDi3783683.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    V01555 Genomic DNA. Translation: CAA24843.1 .
    AJ507799 Genomic DNA. Translation: CAD53406.1 .
    PIRi A00530. WMBE12.
    RefSeqi YP_401656.1. NC_007605.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4A58 X-ray 1.68 A/B 1-302 [» ]
    4A5C X-ray 2.01 A/B 1-302 [» ]
    4A5D X-ray 1.79 A/B 1-302 [» ]
    4A5E X-ray 2.01 A/B 1-302 [» ]
    4A5F X-ray 2.14 A/B 1-302 [» ]
    4A5H X-ray 1.85 A/B 1-302 [» ]
    4A5I X-ray 2.05 A/B 1-302 [» ]
    4A5J X-ray 1.88 A/B 1-302 [» ]
    ProteinModelPortali P0CAP6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi P0CAP6. 6 interactions.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 3783683.

    Enzyme and pathway databases

    UniPathwayi UPA00326 .

    Family and domain databases

    Gene3Di 1.10.620.20. 1 hit.
    InterProi IPR009078. Ferritin-like_SF.
    IPR012348. RNR-rel.
    IPR000358. RNR_small.
    [Graphical view ]
    PANTHERi PTHR23409. PTHR23409. 1 hit.
    Pfami PF00268. Ribonuc_red_sm. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47240. SSF47240. 1 hit.
    PROSITEi PS00368. RIBORED_SMALL. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    2. "Homology between two EBV early genes and HSV ribonucleotide reductase and 38K genes."
      Gibson T.J., Stockwell P., Ginsburg M., Barrell B.G.
      Nucleic Acids Res. 12:5087-5099(1984) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION OF PROTEIN.
    3. "Tinkering with a viral ribonucleotide reductase."
      Lembo D., Brune W.
      Trends Biochem. Sci. 34:25-32(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: REVIEW.
    4. "Mechanistic basis for Epstein-Barr Virus ribonucleotide-reductase small-subunit function."
      Schmitzberger F., Gurmu D., Dahlroth S.L., Nordlund P.
      ACS Chem. Biol. 7:1764-1764(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS) IN COMPLEX WITH IRON IONS, COFACTOR, ACTIVE SITE.

    Entry informationi

    Entry nameiRIR2_EBVB9
    AccessioniPrimary (citable) accession number: P0CAP6
    Secondary accession number(s): P03175, Q777G0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 26, 2009
    Last sequence update: May 26, 2009
    Last modified: October 1, 2014
    This is version 36 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programViral Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3