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Q9ZLF9

- RIR1_HELPJ

UniProt

Q9ZLF9 - RIR1_HELPJ

Protein

Ribonucleoside-diphosphate reductase subunit alpha

Gene

nrdA

Organism
Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 104 (01 Oct 2014)
      Sequence version 1 (01 May 1999)
      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

    BioCyciHPYL85963:GJB9-632-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:jhp_0621
    OrganismiHelicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
    Taxonomic identifieri85963 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
    ProteomesiUP000000804: 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_0000187216Add
    BLAST

    Amino acid modifications

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

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Subunit structurei

    Tetramer of two alpha and two beta subunits.By similarity

    Protein-protein interaction databases

    STRINGi85963.jhp0621.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9ZLF9.
    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.
    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.

    Q9ZLF9-1 [UniParc]FASTAAdd to Basket

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    MITVVKRNGR IEPLDITKIQ KYTKDATDNL EGVSQSELEV DARLQFRDKI    50
    TTEEIQQTLI KTAVDKIDID TPNWSFVASR LFLYDLYHKV SGFTGYRHLK 100
    EYFENAEEKG RILKGFKEKF DLEFLNSQIK PERDFQFNYL GIKTLYDRYL 150
    LKDANNHPIE LPQHMFMSIA MFLAQNEQEL NKIALEFYEV LSKFEAMCAT 200
    PTLANARTTK HQLSSCYIGS TPDNIEGIFD SYKEMALLSK YGGGIGWDFS 250
    LVRSIGSYID GHKNASAGTI PFLKIANDVA IAVDQLGTRK GAIAVYLEIW 300
    HIDVMEFIDL RKNSGDERRR AHDLFPALWV CDLFMKRVLE DAMWTLFDPY 350
    ECKDLTELYG QDFEKRYLEY EKDPKIIKEY INAKDLWKKI LMNYFEAGLP 400
    FLAFKDNANR CNPNAHAGII RSSNLCTEIF QNTAPNHYYM QIEYTDGAIE 450
    FFEEKELVTT DSNITKCANK LTSTDILKGK KIYIATKVAK 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 QSINVFLRIE NASGKTLHEI 750
    YTLAWKLGLK STYYLRSESP SIDEKSVLDR SVECFNCQ 788
    Length:788
    Mass (Da):90,232
    Last modified:May 1, 1999 - v1
    Checksum:iA98AFCBC5CC6398E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE001439 Genomic DNA. Translation: AAD06201.1.
    PIRiF71908.
    RefSeqiNP_223339.1. NC_000921.1.
    WP_000633948.1. NC_000921.1.

    Genome annotation databases

    EnsemblBacteriaiAAD06201; AAD06201; jhp_0621.
    GeneIDi890291.
    KEGGihpj:jhp0621.
    PATRICi20605953. VBIHelPyl98156_0682.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE001439 Genomic DNA. Translation: AAD06201.1 .
    PIRi F71908.
    RefSeqi NP_223339.1. NC_000921.1.
    WP_000633948.1. NC_000921.1.

    3D structure databases

    ProteinModelPortali Q9ZLF9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 85963.jhp0621.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAD06201 ; AAD06201 ; jhp_0621 .
    GeneIDi 890291.
    KEGGi hpj:jhp0621.
    PATRICi 20605953. VBIHelPyl98156_0682.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00326 .
    BioCyci HPYL85963:GJB9-632-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: J99 / ATCC 700824.

    Entry informationi

    Entry nameiRIR1_HELPJ
    AccessioniPrimary (citable) accession number: Q9ZLF9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: May 1, 1999
    Last modified: October 1, 2014
    This is version 104 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

    Documents

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

    External Data

    Dasty 3