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O66503

- RIR1_AQUAE

UniProt

O66503 - RIR1_AQUAE

Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Aquifex aeolicus (strain VF5)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 102 (01 Oct 2014)
      Sequence version 1 (01 Aug 1998)
      Previous versions | rss
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    Functioni

    Provides the precursors necessary for DNA synthesis. 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 to separate specificity and activation sites on the alpha subunit. 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. Stimulated by ATP and inhibited by dATP binding to the activity site By similarity.By similarity

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei7 – 71Allosteric activatorBy similarity
    Binding sitei52 – 521Allosteric activatorBy similarity
    Binding sitei88 – 881Allosteric activatorBy similarity
    Binding sitei219 – 2191SubstrateBy similarity
    Sitei235 – 2351Important for hydrogen atom transferBy similarity
    Sitei242 – 2421Allosteric effector bindingBy similarity
    Binding sitei263 – 2631Substrate; via amide nitrogenBy similarity
    Sitei272 – 2721Allosteric effector bindingBy similarity
    Active sitei483 – 4831Proton acceptorBy similarity
    Active sitei485 – 4851Cysteine radical intermediateBy similarity
    Active sitei487 – 4871Proton acceptorBy similarity
    Sitei521 – 5211Important for hydrogen atom transferBy similarity
    Sitei783 – 7831Important for electron transferBy similarity
    Sitei784 – 7841Important for electron transferBy similarity
    Sitei796 – 7961Interacts with thioredoxin/glutaredoxinBy similarity
    Sitei799 – 7991Interacts with thioredoxin/glutaredoxinBy similarity

    GO - Molecular functioni

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

    GO - Biological processi

    1. DNA replication Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    DNA replication

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciAAEO224324:GJBH-77-MONOMER.
    UniPathwayiUPA00326.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribonucleoside-diphosphate reductase subunit alpha (EC:1.17.4.1)
    Alternative name(s):
    Ribonucleotide reductase
    Gene namesi
    Name:nrdA
    Ordered Locus Names:aq_094
    OrganismiAquifex aeolicus (strain VF5)
    Taxonomic identifieri224324 [NCBI]
    Taxonomic lineageiBacteriaAquificaeAquificalesAquificaceaeAquifex
    ProteomesiUP000000798: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. ribonucleoside-diphosphate reductase complex Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 801801Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187205Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi235 ↔ 521Redox-activeBy similarity

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Subunit structurei

    Tetramer of two alpha and two beta subunits.By similarity

    Protein-protein interaction databases

    STRINGi224324.aq_094.

    Structurei

    3D structure databases

    ProteinModelPortaliO66503.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini3 – 9290ATP-conePROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni13 – 197Allosteric activator bindingBy similarity
    Regioni234 – 2352Substrate bindingBy similarity
    Regioni483 – 4875Substrate bindingBy similarity
    Regioni680 – 6845Substrate bindingBy similarity

    Sequence similaritiesi

    Contains 1 ATP-cone domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0209.
    HOGENOMiHOG000057034.
    KOiK00525.
    OMAiEACLMCQ.
    OrthoDBiEOG6J48HC.

    Family and domain databases

    InterProiIPR005144. ATP-cone.
    IPR013346. NrdE_NrdA.
    IPR000788. RNR_lg_C.
    IPR013509. RNR_lsu_N.
    IPR008926. RNR_R1-su_N.
    [Graphical view]
    PfamiPF03477. ATP-cone. 1 hit.
    PF02867. Ribonuc_red_lgC. 1 hit.
    PF00317. Ribonuc_red_lgN. 1 hit.
    [Graphical view]
    PRINTSiPR01183. RIBORDTASEM1.
    SUPFAMiSSF48168. SSF48168. 1 hit.
    TIGRFAMsiTIGR02506. NrdE_NrdA. 1 hit.
    PROSITEiPS51161. ATP_CONE. 1 hit.
    PS00089. RIBORED_LARGE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O66503-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTMYVIKRSG RKEKLDINKI RIAIKFACEG LNVDPLELEA DAQIQFRDGI    50
    TTKEIQQLLI KTAAEKVSAE RPDWTYTAAR LLLYDLYKDV AHLRGYSLRD 100
    DLGKYKPYNR KNFYSFVKEY VEKGIYGEYL LENYSEEDFN KLANYIKPER 150
    DLYFTYTGIK ILYDRYLVRD EEGRVIELPQ EMYMLIAMTL AVPEKPEERL 200
    KWAKKFYDVL SEHKVTVATP TLMNARRPFT QLSSCFVLTV DDDLFDIFDN 250
    VKKAGMISKF AGGLGVYLGK IRATGAPIRK FKGASSGVIP VVKLINDTMT 300
    YVDQLGMRKG SASITLDIWH KDILDFLEVK TNVGDERKKA HDIHPAVSIP 350
    DLFMKRLKNR EDWTLIDPYW ARQYITRKIY DGKYKEVKPL PGSHYYVGIK 400
    EDGTQDILEP KGLEDFYGEE FEKWYLELEE NLPSYAKKKV NSFELWKRLL 450
    TVAFETGEPY IFFRDEANRK NPNKHTGMVY SSNLCHEIVQ TMSPSKHEKP 500
    VLDPETGEIT YKKEAGDLPV CNLGSVNLGK VHTEEEIKEV LPLLVRMLDN 550
    VIEMNFYAIP EAEYTNKRYR AIGIGVSNYH YCLVKNGIKW ESEEHLKFAD 600
    KLFELIAFYA LKGSLELAKE RGRYKLFDGS NWSKGILFGR SVEEIEENSR 650
    QNGNNLPWRE LAEEIKKYGI RNAYLLALMP TGSTSLILGA TPSIDPIFAR 700
    FYKEENMSGI LPQVPPEVDR FYWHYKTAYT IDHEWTIRAA AVRQKWIDQA 750
    QSLNLFVDPQ NIDGPRLSRL YELAWELGLK TIYYLRSRSA MDIEECEACS 800
    V 801
    Length:801
    Mass (Da):92,914
    Last modified:August 1, 1998 - v1
    Checksum:iFF728EDC7D97C396
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000657 Genomic DNA. Translation: AAC06460.1.
    PIRiD70309.
    RefSeqiNP_213062.1. NC_000918.1.

    Genome annotation databases

    EnsemblBacteriaiAAC06460; AAC06460; aq_094.
    GeneIDi1192514.
    KEGGiaae:aq_094.
    PATRICi20957884. VBIAquAeo85532_0082.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000657 Genomic DNA. Translation: AAC06460.1 .
    PIRi D70309.
    RefSeqi NP_213062.1. NC_000918.1.

    3D structure databases

    ProteinModelPortali O66503.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224324.aq_094.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAC06460 ; AAC06460 ; aq_094 .
    GeneIDi 1192514.
    KEGGi aae:aq_094.
    PATRICi 20957884. VBIAquAeo85532_0082.

    Phylogenomic databases

    eggNOGi COG0209.
    HOGENOMi HOG000057034.
    KOi K00525.
    OMAi EACLMCQ.
    OrthoDBi EOG6J48HC.

    Enzyme and pathway databases

    UniPathwayi UPA00326 .
    BioCyci AAEO224324:GJBH-77-MONOMER.

    Family and domain databases

    InterProi IPR005144. ATP-cone.
    IPR013346. NrdE_NrdA.
    IPR000788. RNR_lg_C.
    IPR013509. RNR_lsu_N.
    IPR008926. RNR_R1-su_N.
    [Graphical view ]
    Pfami PF03477. ATP-cone. 1 hit.
    PF02867. Ribonuc_red_lgC. 1 hit.
    PF00317. Ribonuc_red_lgN. 1 hit.
    [Graphical view ]
    PRINTSi PR01183. RIBORDTASEM1.
    SUPFAMi SSF48168. SSF48168. 1 hit.
    TIGRFAMsi TIGR02506. NrdE_NrdA. 1 hit.
    PROSITEi PS51161. ATP_CONE. 1 hit.
    PS00089. RIBORED_LARGE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: VF5.

    Entry informationi

    Entry nameiRIR1_AQUAE
    AccessioniPrimary (citable) accession number: O66503
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: August 1, 1998
    Last modified: October 1, 2014
    This is version 102 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

    Allosteric enzyme, Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3