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Q8ZH09

- NADK_YERPE

UniProt

Q8ZH09 - NADK_YERPE

Protein

NAD kinase

Gene

nadK

Organism
Yersinia pestis
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 93 (01 Oct 2014)
      Sequence version 1 (01 Mar 2002)
      Previous versions | rss
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    Functioni

    Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP.UniRule annotation

    Catalytic activityi

    ATP + NAD+ = ADP + NADP+.UniRule annotation

    Cofactori

    Divalent metal ions.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei74 – 741Proton acceptorUniRule annotation
    Binding sitei159 – 1591NADUniRule annotation
    Binding sitei176 – 1761NADUniRule annotation
    Sitei176 – 1761Responsible for conferring strict specificity to NADBy similarity
    Binding sitei178 – 1781NADUniRule annotation
    Binding sitei186 – 1861NAD; via carbonyl oxygenUniRule annotation
    Binding sitei248 – 2481NADUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi74 – 752NADUniRule annotation
    Nucleotide bindingi148 – 1492NADUniRule annotation
    Nucleotide bindingi189 – 1946NADUniRule annotation

    GO - Molecular functioni

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

    GO - Biological processi

    1. NAD metabolic process Source: InterPro
    2. NADP biosynthetic process Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Kinase, Transferase

    Keywords - Ligandi

    ATP-binding, NAD, NADP, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciYPES214092:GKDD-1101-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    NAD kinaseUniRule annotation (EC:2.7.1.23UniRule annotation)
    Alternative name(s):
    ATP-dependent NAD kinaseUniRule annotation
    Gene namesi
    Name:nadKUniRule annotation
    Ordered Locus Names:YPO1106, y3074, YP_1050
    OrganismiYersinia pestis
    Taxonomic identifieri632 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
    ProteomesiUP000000815: Chromosome, UP000001019: Chromosome, UP000002490: 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 – 293293NAD kinasePRO_0000120695Add
    BLAST

    Proteomic databases

    PRIDEiQ8ZH09.

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Protein-protein interaction databases

    IntActiQ8ZH09. 1 interaction.
    STRINGi214092.YPO1106.

    Structurei

    Secondary structure

    1
    293
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi7 – 126
    Helixi21 – 3313
    Beta strandi37 – 415
    Helixi42 – 487
    Beta strandi54 – 563
    Helixi58 – 647
    Beta strandi66 – 727
    Helixi74 – 8411
    Turni85 – 884
    Beta strandi90 – 945
    Beta strandi96 – 983
    Helixi107 – 1093
    Helixi110 – 11910
    Beta strandi122 – 13514
    Beta strandi142 – 15615
    Beta strandi161 – 1677
    Beta strandi170 – 18314
    Helixi186 – 1894
    Helixi191 – 1944
    Beta strandi205 – 2139
    Beta strandi222 – 2254
    Beta strandi230 – 2356
    Beta strandi241 – 2455
    Beta strandi251 – 2533
    Beta strandi258 – 27316
    Helixi278 – 2869

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4HAOX-ray2.55A/B1-293[»]
    ProteinModelPortaliQ8ZH09.
    SMRiQ8ZH09. Positions 6-293.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the NAD kinase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0061.
    HOGENOMiHOG000227221.
    KOiK00858.
    OMAiIRRASCA.
    OrthoDBiEOG6PZXDR.

    Family and domain databases

    Gene3Di2.60.200.30. 1 hit.
    3.40.50.10330. 1 hit.
    HAMAPiMF_00361. NAD_kinase.
    InterProiIPR017438. ATP-NAD_kinase_dom_1.
    IPR016064. ATP-NAD_kinase_PpnK-typ.
    IPR017437. ATP-NAD_kinase_PpnK-typ_all-b.
    IPR002504. PolyP/ATP_NADK.
    [Graphical view]
    PANTHERiPTHR20275. PTHR20275. 1 hit.
    PfamiPF01513. NAD_kinase. 1 hit.
    [Graphical view]
    SUPFAMiSSF111331. SSF111331. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q8ZH09-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNNRRFDCIG IVGHPRHPAA LATHEILYHW LKARGYAVMV EQQIAHDLNL    50
    TDAITGSLAD IGQKADLAVV VGGDGNMLGA ARVLARYDIK VIGVNRGNLG 100
    FLTDLDPDNA LQQLSDVLEG EYLSEQRFLL ETHVRRTNQQ SRISTAINEV 150
    VLHPGKVAHM IEFEVYIDDR FAFSQRSDGL IIATPTGSTA YSLSAGGPIL 200
    TPTLDAIVLV PMFPHTLTAR PLVISSSSTI RLKFSHITSD LEISCDSQIA 250
    LPIQEGEEVL IRRSDFHLNL IHPKDYSYFN TLSTKLGWSK KLF 293
    Length:293
    Mass (Da):32,398
    Last modified:March 1, 2002 - v1
    Checksum:iC0231F341E8F4A1E
    GO

    Sequence cautioni

    The sequence AAS61300.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL590842 Genomic DNA. Translation: CAL19772.1.
    AE009952 Genomic DNA. Translation: AAM86624.1.
    AE017042 Genomic DNA. Translation: AAS61300.1. Different initiation.
    PIRiAB0136.
    RefSeqiNP_670373.1. NC_004088.1.
    YP_002346149.1. NC_003143.1.

    Genome annotation databases

    EnsemblBacteriaiAAM86624; AAM86624; y3074.
    AAS61300; AAS61300; YP_1050.
    GeneIDi1148021.
    1173954.
    KEGGiype:YPO1106.
    ypk:y3074.
    PATRICi18591493. VBIYerPes7843_1474.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL590842 Genomic DNA. Translation: CAL19772.1 .
    AE009952 Genomic DNA. Translation: AAM86624.1 .
    AE017042 Genomic DNA. Translation: AAS61300.1 . Different initiation.
    PIRi AB0136.
    RefSeqi NP_670373.1. NC_004088.1.
    YP_002346149.1. NC_003143.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4HAO X-ray 2.55 A/B 1-293 [» ]
    ProteinModelPortali Q8ZH09.
    SMRi Q8ZH09. Positions 6-293.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi Q8ZH09. 1 interaction.
    STRINGi 214092.YPO1106.

    Proteomic databases

    PRIDEi Q8ZH09.

    Protocols and materials databases

    DNASUi 1148021.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAM86624 ; AAM86624 ; y3074 .
    AAS61300 ; AAS61300 ; YP_1050 .
    GeneIDi 1148021.
    1173954.
    KEGGi ype:YPO1106.
    ypk:y3074.
    PATRICi 18591493. VBIYerPes7843_1474.

    Phylogenomic databases

    eggNOGi COG0061.
    HOGENOMi HOG000227221.
    KOi K00858.
    OMAi IRRASCA.
    OrthoDBi EOG6PZXDR.

    Enzyme and pathway databases

    BioCyci YPES214092:GKDD-1101-MONOMER.

    Family and domain databases

    Gene3Di 2.60.200.30. 1 hit.
    3.40.50.10330. 1 hit.
    HAMAPi MF_00361. NAD_kinase.
    InterProi IPR017438. ATP-NAD_kinase_dom_1.
    IPR016064. ATP-NAD_kinase_PpnK-typ.
    IPR017437. ATP-NAD_kinase_PpnK-typ_all-b.
    IPR002504. PolyP/ATP_NADK.
    [Graphical view ]
    PANTHERi PTHR20275. PTHR20275. 1 hit.
    Pfami PF01513. NAD_kinase. 1 hit.
    [Graphical view ]
    SUPFAMi SSF111331. SSF111331. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: CO-92 / Biovar Orientalis.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: KIM10+ / Biovar Mediaevalis.
    3. "Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans."
      Song Y., Tong Z., Wang J., Wang L., Guo Z., Han Y., Zhang J., Pei D., Zhou D., Qin H., Pang X., Han Y., Zhai J., Li M., Cui B., Qi Z., Jin L., Dai R.
      , Chen F., Li S., Ye C., Du Z., Lin W., Wang J., Yu J., Yang H., Wang J., Huang P., Yang R.
      DNA Res. 11:179-197(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 91001 / Biovar Mediaevalis.
    4. "Crystal structure of inorganic polyphosphate/ATP-NAD kinase from Yersinia pestis CO92."
      Center for structural genomics of infectious diseases (CSGID)
      Submitted (SEP-2012) to the PDB data bank
      Cited for: X-RAY CRYSTALLOGRAPHY (2.55 ANGSTROMS), SUBUNIT.

    Entry informationi

    Entry nameiNADK_YERPE
    AccessioniPrimary (citable) accession number: Q8ZH09
    Secondary accession number(s): Q0WHT9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 25, 2002
    Last sequence update: March 1, 2002
    Last modified: October 1, 2014
    This is version 93 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

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3