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Q1C5I4

- NDK_YERPA

UniProt

Q1C5I4 - NDK_YERPA

Protein

Nucleoside diphosphate kinase

Gene

ndk

Organism
Yersinia pestis bv. Antiqua (strain Antiqua)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
  1. Functioni

    Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate.UniRule annotation

    Catalytic activityi

    ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.UniRule annotation

    Cofactori

    Magnesium.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei11 – 111ATPUniRule annotation
    Binding sitei59 – 591ATPUniRule annotation
    Binding sitei87 – 871ATPUniRule annotation
    Binding sitei93 – 931ATPUniRule annotation
    Binding sitei104 – 1041ATPUniRule annotation
    Binding sitei114 – 1141ATPUniRule annotation
    Active sitei117 – 1171Pros-phosphohistidine intermediateUniRule annotation

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-HAMAP
    2. metal ion binding Source: UniProtKB-KW
    3. nucleoside diphosphate kinase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. CTP biosynthetic process Source: UniProtKB-HAMAP
    2. GTP biosynthetic process Source: UniProtKB-HAMAP
    3. UTP biosynthetic process Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Kinase, Transferase

    Keywords - Biological processi

    Nucleotide metabolism

    Keywords - Ligandi

    ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciYPES360102:GHZU-2377-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Nucleoside diphosphate kinaseUniRule annotation (EC:2.7.4.6UniRule annotation)
    Short name:
    NDKUniRule annotation
    Short name:
    NDP kinaseUniRule annotation
    Alternative name(s):
    Nucleoside-2-P kinaseUniRule annotation
    Gene namesi
    Name:ndkUniRule annotation
    Ordered Locus Names:YPA_2323
    OrganismiYersinia pestis bv. Antiqua (strain Antiqua)
    Taxonomic identifieri360102 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
    ProteomesiUP000001971: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 142142Nucleoside diphosphate kinasePRO_0000267809Add
    BLAST

    Keywords - PTMi

    Phosphoprotein

    Interactioni

    Subunit structurei

    Homotetramer.UniRule annotation

    Protein-protein interaction databases

    STRINGi360102.YPA_2323.

    Structurei

    3D structure databases

    ProteinModelPortaliQ1C5I4.
    SMRiQ1C5I4. Positions 2-142.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the NDK family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0105.
    HOGENOMiHOG000224565.
    KOiK00940.
    OMAiFTEDEIC.
    OrthoDBiEOG67DPRV.

    Family and domain databases

    Gene3Di3.30.70.141. 1 hit.
    HAMAPiMF_00451. NDP_kinase.
    InterProiIPR001564. Nucleoside_diP_kinase.
    IPR023005. Nucleoside_diP_kinase_AS.
    [Graphical view]
    PfamiPF00334. NDK. 1 hit.
    [Graphical view]
    PRINTSiPR01243. NUCDPKINASE.
    SMARTiSM00562. NDK. 1 hit.
    [Graphical view]
    SUPFAMiSSF54919. SSF54919. 1 hit.
    PROSITEiPS00469. NDP_KINASES. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q1C5I4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MALERTFSII KPNAVANNDI GAIYARFERA GFKIIAAKML HLTKEQAEGF    50
    YAEHKGRPFF DGLVEFMTSG PIMVQVLEGE NAVQRHRDIM GATNPDNALA 100
    GTLRADFSDS FTANAVHGSD AVESAQREIA YFFAADEIFP RS 142
    Length:142
    Mass (Da):15,631
    Last modified:July 11, 2006 - v1
    Checksum:i414F5C3F56303A8D
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000308 Genomic DNA. Translation: ABG14288.1.
    RefSeqiYP_652233.1. NC_008150.1.

    Genome annotation databases

    EnsemblBacteriaiABG14288; ABG14288; YPA_2323.
    GeneIDi4118192.
    KEGGiypa:YPA_2323.
    PATRICi18584190. VBIYerPes1796_2906.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000308 Genomic DNA. Translation: ABG14288.1 .
    RefSeqi YP_652233.1. NC_008150.1.

    3D structure databases

    ProteinModelPortali Q1C5I4.
    SMRi Q1C5I4. Positions 2-142.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 360102.YPA_2323.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABG14288 ; ABG14288 ; YPA_2323 .
    GeneIDi 4118192.
    KEGGi ypa:YPA_2323.
    PATRICi 18584190. VBIYerPes1796_2906.

    Phylogenomic databases

    eggNOGi COG0105.
    HOGENOMi HOG000224565.
    KOi K00940.
    OMAi FTEDEIC.
    OrthoDBi EOG67DPRV.

    Enzyme and pathway databases

    BioCyci YPES360102:GHZU-2377-MONOMER.

    Family and domain databases

    Gene3Di 3.30.70.141. 1 hit.
    HAMAPi MF_00451. NDP_kinase.
    InterProi IPR001564. Nucleoside_diP_kinase.
    IPR023005. Nucleoside_diP_kinase_AS.
    [Graphical view ]
    Pfami PF00334. NDK. 1 hit.
    [Graphical view ]
    PRINTSi PR01243. NUCDPKINASE.
    SMARTi SM00562. NDK. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54919. SSF54919. 1 hit.
    PROSITEi PS00469. NDP_KINASES. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of Yersinia pestis strains Antiqua and Nepal516: evidence of gene reduction in an emerging pathogen."
      Chain P.S.G., Hu P., Malfatti S.A., Radnedge L., Larimer F., Vergez L.M., Worsham P., Chu M.C., Andersen G.L.
      J. Bacteriol. 188:4453-4463(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Antiqua.

    Entry informationi

    Entry nameiNDK_YERPA
    AccessioniPrimary (citable) accession number: Q1C5I4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 12, 2006
    Last sequence update: July 11, 2006
    Last modified: October 1, 2014
    This is version 54 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

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3