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O55716

- RIR1_IIV6

UniProt

O55716 - RIR1_IIV6

Protein

Ribonucleoside-diphosphate reductase large subunit

Gene

IIV6-085L

Organism
Invertebrate iridescent virus 6 (IIV-6) (Chilo iridescent virus)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 84 (01 Oct 2014)
      Sequence version 1 (01 Jun 1998)
      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. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides By similarity.By similarity

    Catalytic activityi

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

    Enzyme regulationi

    Under complex allosteric control mediated by deoxynucleoside triphosphates and ATP binding. The type of nucleotide bound at the specificity site determines substrate preference. It seems probable that ATP makes the enzyme reduce CDP and UDP, dGTP favors ADP reduction and dTTP favors GDP reduction By similarity.By similarity

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei68 – 681SubstrateBy similarity
    Sitei84 – 841Important for hydrogen atom transferBy similarity
    Sitei91 – 911Allosteric effector bindingBy similarity
    Binding sitei112 – 1121Substrate; via amide nitrogenBy similarity
    Sitei120 – 1201Allosteric effector bindingBy similarity
    Active sitei270 – 2701Proton acceptorBy similarity
    Active sitei611 – 6111Cysteine radical intermediateBy similarity
    Active sitei613 – 6131Proton acceptorBy similarity
    Sitei626 – 6261Important for hydrogen atom transferBy similarity
    Sitei890 – 8901Important for electron transferBy similarity
    Sitei891 – 8911Important for electron transferBy similarity
    Sitei955 – 9551Interacts with thioredoxin/glutaredoxinBy similarity
    Sitei958 – 9581Interacts with thioredoxin/glutaredoxinBy similarity

    GO - Molecular functioni

    1. ATP binding Source: InterPro
    2. endonuclease activity Source: InterPro
    3. ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor Source: UniProtKB-EC

    GO - Biological processi

    1. DNA replication Source: UniProtKB-UniPathway
    2. intein-mediated protein splicing Source: InterPro

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    DNA replication

    Enzyme and pathway databases

    UniPathwayiUPA00326.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribonucleoside-diphosphate reductase large subunit (EC:1.17.4.1)
    Alternative name(s):
    Ribonucleotide reductase large subunit
    Cleaved into the following chain:
    Gene namesi
    ORF Names:IIV6-085L
    OrganismiInvertebrate iridescent virus 6 (IIV-6) (Chilo iridescent virus)
    Taxonomic identifieri176652 [NCBI]
    Taxonomic lineageiVirusesdsDNA viruses, no RNA stageIridoviridaeIridovirus
    Virus hostiAcheta domesticus (House cricket) [TaxID: 6997]
    Chilo suppressalis (striped riceborer) [TaxID: 168631]
    Gryllus bimaculatus (Two-spotted cricket) [TaxID: 6999]
    Gryllus campestris [TaxID: 58607]
    Spodoptera frugiperda (Fall armyworm) [TaxID: 7108]
    ProteomesiUP000001359: Genome

    Subcellular locationi

    GO - Cellular componenti

    1. ribonucleoside-diphosphate reductase complex Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 271271Ribonucleoside-diphosphate reductase large subunit, 1st partPRO_0000376951Add
    BLAST
    Chaini272 – 611340IIV-6 RIR1 inteinSequence AnalysisPRO_0000376952Add
    BLAST
    Chaini612 – 959348Ribonucleoside-diphosphate reductase large subunit, 2nd partPRO_0000377536Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi84 ↔ 626Redox-activeBy similarity

    Keywords - PTMi

    Autocatalytic cleavage, Disulfide bond, Protein splicing

    Interactioni

    Subunit structurei

    Heterotetramer composed of a homodimer of the large subunit (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

    Structurei

    3D structure databases

    ProteinModelPortaliO55716.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini378 – 508131DOD-type homing endonucleasePROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni83 – 842Substrate bindingBy similarity
    Regioni751 – 7555Substrate bindingBy similarity

    Sequence similaritiesi

    Contains 1 DOD-type homing endonuclease domain.PROSITE-ProRule annotation

    Family and domain databases

    Gene3Di2.170.16.10. 2 hits.
    3.10.28.10. 1 hit.
    InterProiIPR028992. Hedgehog/Intein_dom.
    IPR003586. Hint_dom_C.
    IPR003587. Hint_dom_N.
    IPR027434. Homing_endonucl.
    IPR006142. INTEIN.
    IPR004042. Intein_endonuc.
    IPR006141. Intein_splice_site.
    IPR000788. RNR_lg_C.
    IPR013509. RNR_lsu_N.
    IPR008926. RNR_R1-su_N.
    [Graphical view]
    PfamiPF14528. LAGLIDADG_3. 1 hit.
    PF02867. Ribonuc_red_lgC. 3 hits.
    PF00317. Ribonuc_red_lgN. 1 hit.
    [Graphical view]
    PRINTSiPR00379. INTEIN.
    SMARTiSM00305. HintC. 1 hit.
    SM00306. HintN. 1 hit.
    [Graphical view]
    SUPFAMiSSF48168. SSF48168. 1 hit.
    SSF51294. SSF51294. 2 hits.
    SSF55608. SSF55608. 1 hit.
    TIGRFAMsiTIGR01445. intein_Nterm. 1 hit.
    PROSITEiPS50819. INTEIN_ENDONUCLEASE. 1 hit.
    PS50817. INTEIN_N_TER. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    O55716-1 [UniParc]FASTAAdd to Basket

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    MSDIIIDLSR DSKFDELGLK RLRESYMMRE ETSPQERFAY VCKQVGTDRD    50
    HSQRLYEYTS KHWLSLSTPI LSFGKANHGL PISCYLSWIE DTKEGLIDTL 100
    SEVNQLSMLG GGVGVGVGIR TSDNKSTGVM SHLNTYDACS LAYKQDGVRR 150
    GSYAMYLNNN HPDVLQFIEM RKPTGDHNIR CLNLHHGLNI SDEFMELIEK 200
    CDGGGNIDDT WNLIDPHTKK ITTVGARDLW QRILETRMKT GEPYICFIDT 250
    CNKHMYDFQK KKGLTIKQSN LCVAPETMIL TEDGQFPIKD LEGKIIKVWN 300
    GNEFSSVTVV KTGTEKELLE VELSNGCTLS CTPEHKFIIV KSYTEAKKQK 350
    TDDNAIANAE RVDAQDLKPR MKLIKFDLPT LFGNSEHDIK YPYTHGFFCG 400
    DGTYTKYGKP QLSLYGDKKE LLTYLDVRTM TGLEDASGRL NTWLPLDLAP 450
    KFDVPINSSL ECRMEWLAGY LDADGCVFRN GTNESIQVSC IHLDFLKRIQ 500
    LLLIGMGVTS KITKLHDEKI TTMPDGKGGQ KPYSCKPIWR LFISSSGLYH 550
    LSEQGFETRR LKWEPRQPQR NAERFVEVLK VNKTGRVDDT YCFTEPINHA 600
    GVFNGILTGQ CSEIILPTDS TRTAVCCLSS LNLEYYDEWK DNDLFIKDVM 650
    EMLDNALTIF IEKAPPTISR AVNSAKKERS IGIGVLGFHS FLQQKNISFE 700
    SDEAAKLNID IFTKLRSKID TFNLVLGSLR GSPEDAEGTG RRFCCTMAVA 750
    PTATSSIIMG NTSPSVEPFR ANAYRQDTLS GSFLNKNRYL SRILSQRLNV 800
    KEINEVWSNI VSNGGSVQQL PNNLLSEQEK QVFKTAFEIN QKWVIKHAAD 850
    RQKYIDQSQS INLFLKPDIH KRELHSLHLN AWKSGLKTLY YLRSEKIADA 900
    DKISSNHMIN SINFTNIKES IKDSIKVSIL EVRNKEKNYE EKICKLTNGR 950
    RLSGCFACE 959
    Length:959
    Mass (Da):108,770
    Last modified:June 1, 1998 - v1
    Checksum:iCA051A57E685F419
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF303741 Genomic DNA. Translation: AAB94427.1.
    PIRiT03053.
    RefSeqiNP_149548.1. NC_003038.1.

    Genome annotation databases

    GeneIDi1733256.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF303741 Genomic DNA. Translation: AAB94427.1 .
    PIRi T03053.
    RefSeqi NP_149548.1. NC_003038.1.

    3D structure databases

    ProteinModelPortali O55716.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 1733256.

    Enzyme and pathway databases

    UniPathwayi UPA00326 .

    Family and domain databases

    Gene3Di 2.170.16.10. 2 hits.
    3.10.28.10. 1 hit.
    InterProi IPR028992. Hedgehog/Intein_dom.
    IPR003586. Hint_dom_C.
    IPR003587. Hint_dom_N.
    IPR027434. Homing_endonucl.
    IPR006142. INTEIN.
    IPR004042. Intein_endonuc.
    IPR006141. Intein_splice_site.
    IPR000788. RNR_lg_C.
    IPR013509. RNR_lsu_N.
    IPR008926. RNR_R1-su_N.
    [Graphical view ]
    Pfami PF14528. LAGLIDADG_3. 1 hit.
    PF02867. Ribonuc_red_lgC. 3 hits.
    PF00317. Ribonuc_red_lgN. 1 hit.
    [Graphical view ]
    PRINTSi PR00379. INTEIN.
    SMARTi SM00305. HintC. 1 hit.
    SM00306. HintN. 1 hit.
    [Graphical view ]
    SUPFAMi SSF48168. SSF48168. 1 hit.
    SSF51294. SSF51294. 2 hits.
    SSF55608. SSF55608. 1 hit.
    TIGRFAMsi TIGR01445. intein_Nterm. 1 hit.
    PROSITEi PS50819. INTEIN_ENDONUCLEASE. 1 hit.
    PS50817. INTEIN_N_TER. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Analysis of the first complete DNA sequence of an invertebrate iridovirus: coding strategy of the genome of Chilo iridescent virus."
      Jakob N.J., Mueller K., Bahr U., Darai G.
      Virology 286:182-196(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    2. "Comparative genomic analysis of the family Iridoviridae: re-annotating and defining the core set of iridovirus genes."
      Eaton H.E., Metcalf J., Penny E., Tcherepanov V., Upton C., Brunetti C.R.
      Virol. J. 4:11-11(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: GENOME REANNOTATION.

    Entry informationi

    Entry nameiRIR1_IIV6
    AccessioniPrimary (citable) accession number: O55716
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 16, 2009
    Last sequence update: June 1, 1998
    Last modified: October 1, 2014
    This is version 84 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

    Complete proteome, Reference proteome

    Documents

    1. Intein-containing proteins
      List of intein-containing protein entries
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3