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Q8UEM4

- NRDJ_AGRT5

UniProt

Q8UEM4 - NRDJ_AGRT5

Protein

Vitamin B12-dependent ribonucleotide reductase

Gene

nrdJ

Organism
Agrobacterium tumefaciens (strain C58 / ATCC 33970)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 83 (01 Oct 2014)
      Sequence version 1 (01 Jun 2002)
      Previous versions | rss
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    Functioni

    Catalyzes the reduction of ribonucleotides to deoxyribonucleotides. May function to provide a pool of deoxyribonucleotide precursors for DNA repair during oxygen limitation and/or for immediate growth after restoration of oxygen By similarity.By similarity

    Catalytic activityi

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

    Cofactori

    5'-deoxyadenosylcobalamine (coenzyme B12).By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei153 – 1531SubstrateBy similarity
    Binding sitei230 – 2301Substrate; via amide nitrogenBy similarity
    Active sitei474 – 4741Proton acceptorBy similarity
    Active sitei476 – 4761Cysteine radical intermediateBy similarity
    Active sitei478 – 4781Proton acceptorBy similarity

    GO - Molecular functioni

    1. cobalamin binding Source: UniProtKB-KW
    2. cobalt ion binding Source: InterPro
    3. nucleotide binding Source: UniProtKB-KW
    4. ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor Source: UniProtKB-EC

    GO - Biological processi

    1. DNA replication Source: UniProtKB-KW

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    DNA synthesis

    Keywords - Ligandi

    Cobalamin, Cobalt, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciAGRO:ATU1733-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Vitamin B12-dependent ribonucleotide reductase (EC:1.17.4.1)
    Alternative name(s):
    Ribonucleoside-diphosphate reductase NrdJ
    Gene namesi
    Name:nrdJ
    Ordered Locus Names:Atu1733
    ORF Names:AGR_C_3183
    OrganismiAgrobacterium tumefaciens (strain C58 / ATCC 33970)
    Taxonomic identifieri176299 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacteriumAgrobacterium tumefaciens complex
    ProteomesiUP000000813: Chromosome circular

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 12721272Vitamin B12-dependent ribonucleotide reductasePRO_0000231657Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi199 ↔ 487Redox-activeBy similarity

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi176299.Atu1733.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8UEM4.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni198 – 1992Substrate bindingBy similarity
    Regioni474 – 4785Substrate bindingBy similarity
    Regioni675 – 6795Substrate bindingBy similarity

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG0209.
    HOGENOMiHOG000021770.
    KOiK00525.
    OMAiTAFDIKF.
    OrthoDBiEOG6H4K5F.

    Family and domain databases

    Gene3Di1.10.10.200. 1 hit.
    InterProiIPR017856. Integrase_Zn-bd_dom-like_N.
    IPR013678. RNR_2_N.
    IPR000788. RNR_lg_C.
    IPR013344. RNR_NrdJ/NrdZ.
    IPR024434. TSCPD_dom.
    IPR029072. YebC-like.
    [Graphical view]
    PfamiPF08471. Ribonuc_red_2_N. 1 hit.
    PF02867. Ribonuc_red_lgC. 2 hits.
    PF12637. TSCPD. 1 hit.
    [Graphical view]
    PRINTSiPR01183. RIBORDTASEM1.
    SUPFAMiSSF75625. SSF75625. 1 hit.
    TIGRFAMsiTIGR02504. NrdJ_Z. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q8UEM4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRIERRFTKP GQSSYAEIEF RKAVSEIKNP DGSVVFRLAD IDVPAQFSQV     50
    ATDVLAQKYF RKAGVPKLLK KVEENDVPSF LWRSVADEKA LKELPEAERY 100
    GSETDARQVF DRLAGTWAYW GWKGKYFSTE EDASAFKDEL AYMLATQRVA 150
    PNSPQWFNTG LHWAYGIDGP GQGHFYVDPF TGKLTKSKSA YEHPQPHACF 200
    IQSVEDDLVN EGGIMDLWVR EARLFKYGSG TGSNFSYLRG EGEKLSGGGK 250
    SSGLMSFLKI GDRAAGAIKS GGTTRRAAKM VVVDADHPDI EAYIDWKVNE 300
    EQKVAALVTG SKIVAKHLKA IMKACVNCEA DNGDCFDPAK NPALKREIRA 350
    AKKDMVPENY VKRVIQFAEQ GYKDIQFKTY DTDWDSEAYL TVSGQNSNNS 400
    VSLKDDFLRA VENDGNWNLT ARKDGKVMKT LKARDLWEKI SHAAWASADP 450
    GLHFNTTMND WHTSPAEGPI RASNPCSEYM FLDDTACNLA SLNLLQFKDA 500
    KTKRIDIADY EHAVRLWTVV LEVSVMMAQF PSRQIAERSY EYRTLGLGYA 550
    NIGGLLMSSG IPYDSDEGRA IAGALTAIMT GVSYATSAEM AGELGPFPSF 600
    APNRDNMLRV IRNHRRAAHG QSEGYEGLSV NPVALIHADC TDQDLVAHAT 650
    AAWDKALELG EKHGYRNAQT TVIAPTGTIG LVMDCDTTGI EPDFALVKFK 700
    KLAGGGYFKI INRAVPESLR SLGYSESQIA EIEAYAVGHG NLNQAPAINP 750
    STLKAKGFTD EKIEAVNAAL KSAFDIKFVF NQWTLGADFL KGTLKVSDEQ 800
    LSDMSFNLLD HLGFAKKDIE AANVHVCGAM TLEGAPFLKN EHLAVFDCAN 850
    PCGKIGKRYL SVESHIRMMA AAQPFISGAI SKTINMPNDA TVEDCGAAYM 900
    LSWKLALKAN ALYRDGSKLS QPLNASLVED EDDEDFVEEL IQQPLAQQAV 950
    TITEKIVERV IERVSREREK LPNRRQGYTQ KATVGGHKVY LRTGEFGDGR 1000
    IGEIFIDMHK EGAAFRAMMN NFAIAISLGL QYGVPLEEYV EAFTFTKFEP 1050
    AGMVQGNDAI KNATSILDYV FRELAVSYLG RHDLAHVDTS DFSNTALGKG 1100
    IQEGKTNLLS TGWTRGYKPT LVSSNEGDRA ASEPKGSATA APARGSANVT 1150
    SFAGSAARKL EPTVAITTSE IVSFKRDYEE RAKELAEEIA EEVIDEVVQE 1200
    AQQTATALFS DKAAADAASA KAEAKKKENE RRMRSIAQGY TGNMCSECQN 1250
    FTMVRNGTCE KCDTCGATSG CS 1272
    Length:1,272
    Mass (Da):139,623
    Last modified:June 1, 2002 - v1
    Checksum:i3FA22DCC85AC6E2D
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE007869 Genomic DNA. Translation: AAK87503.1.
    PIRiAF2789.
    F97568.
    RefSeqiNP_354718.1. NC_003062.2.

    Genome annotation databases

    EnsemblBacteriaiAAK87503; AAK87503; Atu1733.
    GeneIDi1139199.
    KEGGiatu:Atu1733.
    PATRICi20813235. VBIAgrTum91616_1745.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE007869 Genomic DNA. Translation: AAK87503.1 .
    PIRi AF2789.
    F97568.
    RefSeqi NP_354718.1. NC_003062.2.

    3D structure databases

    ProteinModelPortali Q8UEM4.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 176299.Atu1733.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAK87503 ; AAK87503 ; Atu1733 .
    GeneIDi 1139199.
    KEGGi atu:Atu1733.
    PATRICi 20813235. VBIAgrTum91616_1745.

    Phylogenomic databases

    eggNOGi COG0209.
    HOGENOMi HOG000021770.
    KOi K00525.
    OMAi TAFDIKF.
    OrthoDBi EOG6H4K5F.

    Enzyme and pathway databases

    BioCyci AGRO:ATU1733-MONOMER.

    Family and domain databases

    Gene3Di 1.10.10.200. 1 hit.
    InterProi IPR017856. Integrase_Zn-bd_dom-like_N.
    IPR013678. RNR_2_N.
    IPR000788. RNR_lg_C.
    IPR013344. RNR_NrdJ/NrdZ.
    IPR024434. TSCPD_dom.
    IPR029072. YebC-like.
    [Graphical view ]
    Pfami PF08471. Ribonuc_red_2_N. 1 hit.
    PF02867. Ribonuc_red_lgC. 2 hits.
    PF12637. TSCPD. 1 hit.
    [Graphical view ]
    PRINTSi PR01183. RIBORDTASEM1.
    SUPFAMi SSF75625. SSF75625. 1 hit.
    TIGRFAMsi TIGR02504. NrdJ_Z. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: C58 / ATCC 33970.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: C58 / ATCC 33970.

    Entry informationi

    Entry nameiNRDJ_AGRT5
    AccessioniPrimary (citable) accession number: Q8UEM4
    Secondary accession number(s): Q7CYN2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 4, 2006
    Last sequence update: June 1, 2002
    Last modified: October 1, 2014
    This is version 83 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

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3