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O83972

- RIR1_TREPA

UniProt

O83972 - RIR1_TREPA

Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Treponema pallidum (strain Nichols)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 101 (01 Oct 2014)
      Sequence version 1 (01 Nov 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. 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 sitei303 – 3031SubstrateBy similarity
    Sitei319 – 3191Important for hydrogen atom transferBy similarity
    Sitei326 – 3261Allosteric effector bindingBy similarity
    Binding sitei347 – 3471Substrate; via amide nitrogenBy similarity
    Sitei356 – 3561Allosteric effector bindingBy similarity
    Active sitei534 – 5341Proton acceptorBy similarity
    Active sitei536 – 5361Cysteine radical intermediateBy similarity
    Active sitei538 – 5381Proton acceptorBy similarity
    Sitei574 – 5741Important for hydrogen atom transferBy similarity
    Sitei828 – 8281Important for electron transferBy similarity
    Sitei829 – 8291Important for electron transferBy similarity
    Sitei840 – 8401Interacts with thioredoxin/glutaredoxinBy similarity
    Sitei843 – 8431Interacts 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

    BioCyciTPAL243276:GC1H-1063-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:TP_1008
    OrganismiTreponema pallidum (strain Nichols)
    Taxonomic identifieri243276 [NCBI]
    Taxonomic lineageiBacteriaSpirochaetesSpirochaetalesSpirochaetaceaeTreponema
    ProteomesiUP000000811: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. ribonucleoside-diphosphate reductase complex Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 845845Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187223Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi319 ↔ 574Redox-activeBy similarity

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Subunit structurei

    Tetramer of two alpha and two beta subunits.By similarity

    Protein-protein interaction databases

    IntActiO83972. 2 interactions.
    STRINGi243276.TP1008.

    Structurei

    3D structure databases

    ProteinModelPortaliO83972.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini1 – 9898ATP-conePROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni318 – 3192Substrate bindingBy similarity
    Regioni534 – 5385Substrate bindingBy similarity
    Regioni725 – 7295Substrate bindingBy similarity

    Sequence similaritiesi

    Contains 1 ATP-cone domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0209.
    KOiK00525.
    OMAiVSEASEY.
    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.

    O83972-1 [UniParc]FASTAAdd to Basket

    « Hide

    MHIIKRNGEP QPYMREKIIV AISAAFRSVQ NPLAPEVPAI ITDLAAEVER    50
    QLFEMNRAGV PVHVEKIQDF VEKTLTKYNH SDEVKSFILY RDDRTKKRIA 100
    REQIACCFTD SSVLGVLKEI QQDFPFPEYS LDALASKFLL FKKEVTDERR 150
    SMQLLIKAAV ELTAQEAPQW ELIAARLLML DFSLALGTSL EKLNIHSFYE 200
    KITYLEEAGL YGVYIRTHYS RAEIEEAATY LECSRDKLFT YSSLDMILRR 250
    YVIRTRAHVP LETPQEMFLG IALHLAMNET QDRMQWVKRF YTVLSKLQVT 300
    VATPTLSNAR KPFHQLSSCF VDTVPDSLDG IYRSIDNFSQ VSKFGGGMGL 350
    YFGKVRAVGA PIRGFQGAAG GILRWIKLAN DTAVAVDQLG VRQGSVAVYL 400
    DVWHKDIPEF LQLRTNNGDD RMKAHDVFPA VCYPDLFWKT VRDNLGASWY 450
    LMCPHEILTV KGYALEDFYA EEWEKRYWDC VKDARISKRT IPIKELVRLV 500
    LKSVVETGTP FAFYRDHANR ANPNGHRGII YCSNLCTEIA QNMSAINLVS 550
    VKITEVDGQK VVVQTTRPGD FVVCNLASLV LSNIDLSDDK ELREVVRVAV 600
    RALDNVIDLT YYPVPYAQVT NAYYRAIGLG VSGYHHVLAQ QGIDWESDEH 650
    LAFADRIFER INRAAIEASM TIAREKGAYG CFTGSDWCTG AYFRKRGYVS 700
    EDWQRLQREV ATHGMRNGYL LAVAPTSSTS IIAGTTAGVD PIMKQYFLEE 750
    KKGMLMPRVA PSLSQKTCPL YKSAHAVEQR WSIRAAGLRQ RHIDQAQSVN 800
    LYITTDFTLK QVLDLYVYAW EVGMKSLYYV RSQSLEIDLC GYCAS 845
    Length:845
    Mass (Da):95,987
    Last modified:November 1, 1998 - v1
    Checksum:i47DC688E4D0B356C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000520 Genomic DNA. Translation: AAC65956.1.
    PIRiB71255.
    RefSeqiNP_219445.1. NC_000919.1.
    YP_008091827.1. NC_021490.2.

    Genome annotation databases

    EnsemblBacteriaiAAC65956; AAC65956; TP_1008.
    GeneIDi15852298.
    2610819.
    KEGGitpa:TP1008.
    tpw:TPANIC_1008.
    PATRICi20532141. VBITrePal57110_1063.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000520 Genomic DNA. Translation: AAC65956.1 .
    PIRi B71255.
    RefSeqi NP_219445.1. NC_000919.1.
    YP_008091827.1. NC_021490.2.

    3D structure databases

    ProteinModelPortali O83972.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi O83972. 2 interactions.
    STRINGi 243276.TP1008.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAC65956 ; AAC65956 ; TP_1008 .
    GeneIDi 15852298.
    2610819.
    KEGGi tpa:TP1008.
    tpw:TPANIC_1008.
    PATRICi 20532141. VBITrePal57110_1063.

    Phylogenomic databases

    eggNOGi COG0209.
    KOi K00525.
    OMAi VSEASEY.
    OrthoDBi EOG6J48HC.

    Enzyme and pathway databases

    UniPathwayi UPA00326 .
    BioCyci TPAL243276:GC1H-1063-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: Nichols.

    Entry informationi

    Entry nameiRIR1_TREPA
    AccessioniPrimary (citable) accession number: O83972
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 1998
    Last sequence update: November 1, 1998
    Last modified: October 1, 2014
    This is version 101 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