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P55982

- RIR1_HELPY

UniProt

P55982 - RIR1_HELPY

Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
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 1997)
      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 sitei6 – 61Allosteric activatorBy similarity
    Binding sitei52 – 521Allosteric activatorBy similarity
    Binding sitei200 – 2001SubstrateBy similarity
    Sitei216 – 2161Important for hydrogen atom transferBy similarity
    Sitei223 – 2231Allosteric effector bindingBy similarity
    Binding sitei244 – 2441Substrate; via amide nitrogenBy similarity
    Sitei253 – 2531Allosteric effector bindingBy similarity
    Active sitei424 – 4241Proton acceptorBy similarity
    Active sitei426 – 4261Cysteine radical intermediateBy similarity
    Active sitei428 – 4281Proton acceptorBy similarity
    Sitei497 – 4971Important for hydrogen atom transferBy similarity
    Sitei763 – 7631Important for electron transferBy similarity
    Sitei764 – 7641Important for electron transferBy similarity
    Sitei784 – 7841Interacts with thioredoxin/glutaredoxinBy similarity
    Sitei787 – 7871Interacts 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

    BioCyciHPY:HP0680-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:HP_0680
    OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
    Taxonomic identifieri85962 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
    ProteomesiUP000000429: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. ribonucleoside-diphosphate reductase complex Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 788788Ribonucleoside-diphosphate reductase subunit alphaPRO_0000187215Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi216 ↔ 497Redox-activeBy similarity

    Keywords - PTMi

    Disulfide bond

    Proteomic databases

    PRIDEiP55982.

    Interactioni

    Subunit structurei

    Tetramer of two alpha and two beta subunits.By similarity

    Protein-protein interaction databases

    DIPiDIP-3151N.
    IntActiP55982. 5 interactions.
    MINTiMINT-174596.
    STRINGi85962.HP0680.

    Structurei

    3D structure databases

    ProteinModelPortaliP55982.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini2 – 9291ATP-conePROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni12 – 187Allosteric activator bindingBy similarity
    Regioni215 – 2162Substrate bindingBy similarity
    Regioni424 – 4285Substrate bindingBy similarity
    Regioni659 – 6635Substrate bindingBy similarity

    Sequence similaritiesi

    Contains 1 ATP-cone domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0209.
    KOiK00525.
    OMAiIDECESC.
    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.

    P55982-1 [UniParc]FASTAAdd to Basket

    « Hide

    MITVVKRNGR IEPLDITKIQ KYTKDATDNL EGVSQSELEV DARLQFRDKI    50
    TTEEIQQTLI KTAVDKIDID TPNWSFVASR LFLYDLYHKV SGFTGYRHLK 100
    EYFENAEEKG RILKGFKEKF DLEFLNSQIK PERDFQFNYL GIKTLYDRYL 150
    LKDANNNPIE LPQHMFMSIA MFLAQNEQEP NKIALEFYEV LSKFEAMCAT 200
    PTLANARTTK HQLSSCYIGS TPDNIEGIFD SYKEMALLSK YGGGIGWDFS 250
    LVRSIGSYID GHKNASAGTI PFLKIANDVA IAVDQLGTRK GAIAVYLEIW 300
    HIDVMEFIDL RKNSGDERRR AHDLFPALWV CDLFLKRVLE DAMWTLFDPY 350
    ECKDLTELYG QDFEKRYLEY EKDPKIIKEY INAKDLWKKI LMNYFEAGLP 400
    FLAFKDNANR CNPNAHAGII RSSNLCTEIF QNTAPNHYYM QIEYTDGTIE 450
    FFEEKELVTT DSNITKCANK LTSTDILKGK PIYIATKVAK DGQTAVCNLA 500
    SINLSKINTE EDIKRVVPIM VRLLDNVIDL NFYPNRKVKA TNLQNRAIGL 550
    GVMGEAQMLA EHQIAWGSKE HLEKIDALME QISYHAIDTS ANLAKEKGVY 600
    KDFENSEWSK GIFPIDKANN EALKLTEKGL FNHACDWQGL REKVKANGMR 650
    NGYLMAIAPT SSISILVGTT QTIEPIYKKK WFEENLSGLI PVVVPNLNVE 700
    TWNFYTSAYD IDAKDLIKAA AVRQKWIDQG QSLNVFLRIE NASGKTLHDI 750
    YTLAWKLGLK STYYLRSESP SIDEKSVLDR SVECFNCQ 788
    Length:788
    Mass (Da):90,160
    Last modified:November 1, 1997 - v1
    Checksum:iBF22559D3D3796D4
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000511 Genomic DNA. Translation: AAD14884.1.
    PIRiH64604.
    RefSeqiNP_207474.1. NC_000915.1.
    YP_006934601.1. NC_018939.1.

    Genome annotation databases

    EnsemblBacteriaiAAD14884; AAD14884; HP_0680.
    GeneIDi13869869.
    899990.
    KEGGiheo:C694_03505.
    hpy:HP0680.
    PATRICi20592643. VBIHelPyl33062_0710.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000511 Genomic DNA. Translation: AAD14884.1 .
    PIRi H64604.
    RefSeqi NP_207474.1. NC_000915.1.
    YP_006934601.1. NC_018939.1.

    3D structure databases

    ProteinModelPortali P55982.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-3151N.
    IntActi P55982. 5 interactions.
    MINTi MINT-174596.
    STRINGi 85962.HP0680.

    Proteomic databases

    PRIDEi P55982.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAD14884 ; AAD14884 ; HP_0680 .
    GeneIDi 13869869.
    899990.
    KEGGi heo:C694_03505.
    hpy:HP0680.
    PATRICi 20592643. VBIHelPyl33062_0710.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00326 .
    BioCyci HPY:HP0680-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: ATCC 700392 / 26695.

    Entry informationi

    Entry nameiRIR1_HELPY
    AccessioniPrimary (citable) accession number: P55982
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: November 1, 1997
    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. Helicobacter pylori
      Helicobacter pylori (strain 26695): entries and gene names
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3