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P58719

- PDXA_YERPE

UniProt

P58719 - PDXA_YERPE

Protein

4-hydroxythreonine-4-phosphate dehydrogenase

Gene

pdxA

Organism
Yersinia pestis
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 97 (01 Oct 2014)
      Sequence version 1 (31 Jan 2002)
      Previous versions | rss
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    Functioni

    Catalyzes the NAD(P)-dependent oxidation of 4-(phosphohydroxy)-L-threonine (HTP) into 2-amino-3-oxo-4-(phosphohydroxy)butyric acid which spontaneously decarboxylates to form 3-amino-2-oxopropyl phosphate (AHAP).UniRule annotation

    Catalytic activityi

    4-phosphonooxy-L-threonine + NAD+ = 3-amino-2-oxopropyl phosphate + CO2 + NADH.

    Cofactori

    Binds 1 divalent metal cation per subunit. Can use ions such as zinc, magnesium or cobalt.UniRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei137 – 1371SubstrateUniRule annotation
    Binding sitei138 – 1381SubstrateUniRule annotation
    Metal bindingi167 – 1671Divalent metal cation; shared with dimeric partnerUniRule annotation
    Metal bindingi212 – 2121Divalent metal cation; shared with dimeric partnerUniRule annotation
    Metal bindingi267 – 2671Divalent metal cation; shared with dimeric partnerUniRule annotation
    Binding sitei275 – 2751SubstrateUniRule annotation
    Binding sitei284 – 2841SubstrateUniRule annotation
    Binding sitei293 – 2931SubstrateUniRule annotation

    GO - Molecular functioni

    1. 4-hydroxythreonine-4-phosphate dehydrogenase activity Source: UniProtKB-HAMAP
    2. cobalt ion binding Source: UniProtKB-HAMAP
    3. magnesium ion binding Source: UniProtKB-HAMAP
    4. NAD binding Source: InterPro
    5. zinc ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. pyridoxal phosphate biosynthetic process Source: UniProtKB-HAMAP
    2. pyridoxine biosynthetic process Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Pyridoxine biosynthesis

    Keywords - Ligandi

    Cobalt, Magnesium, Metal-binding, NAD, NADP, Zinc

    Enzyme and pathway databases

    BioCyciYPES214092:GKDD-489-MONOMER.
    UniPathwayiUPA00244; UER00312.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    4-hydroxythreonine-4-phosphate dehydrogenaseUniRule annotation (EC:1.1.1.262UniRule annotation)
    Alternative name(s):
    4-(phosphohydroxy)-L-threonine dehydrogenaseUniRule annotation
    Gene namesi
    Name:pdxAUniRule annotation
    Ordered Locus Names:YPO0493, y3682, YP_3686
    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 – 3313314-hydroxythreonine-4-phosphate dehydrogenasePRO_0000188841Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi214092.YPO0493.

    Structurei

    Secondary structure

    1
    331
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi6 – 116
    Helixi19 – 268
    Beta strandi32 – 398
    Helixi41 – 5010
    Beta strandi56 – 594
    Beta strandi73 – 786
    Helixi92 – 943
    Helixi95 – 11117
    Beta strandi112 – 1154
    Beta strandi117 – 1193
    Helixi124 – 1296
    Helixi137 – 1459
    Beta strandi151 – 1566
    Beta strandi159 – 1657
    Helixi170 – 1723
    Helixi173 – 1764
    Helixi179 – 19517
    Beta strandi204 – 2074
    Helixi211 – 2177
    Helixi222 – 2254
    Helixi227 – 23610
    Beta strandi241 – 2455
    Helixi247 – 2504
    Helixi253 – 2564
    Beta strandi260 – 2667
    Helixi267 – 27812
    Beta strandi283 – 2919
    Beta strandi293 – 2986
    Helixi302 – 3043
    Turni305 – 3073
    Helixi313 – 32816

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3LXYX-ray1.70A1-331[»]
    ProteinModelPortaliP58719.
    SMRiP58719. Positions 7-329.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP58719.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the PdxA family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1995.
    HOGENOMiHOG000221592.
    KOiK00097.
    OMAiDTLFQDK.
    OrthoDBiEOG6GN6ZC.

    Family and domain databases

    Gene3Di3.40.718.10. 1 hit.
    HAMAPiMF_00536. PdxA.
    InterProiIPR024084. IsoPropMal-DH-like_dom.
    IPR005255. PdxA.
    [Graphical view]
    PfamiPF04166. PdxA. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00557. pdxA. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    P58719-1 [UniParc]FASTAAdd to Basket

    « Hide

    MHNHNNRLVI TPGEPAGVGP DLAITLAQQD WPVELVVCAD PALLLARASQ    50
    LNLPLQLREY QADQPAIAQQ AGSLTILPVK TAVNVVPGKL DVGNSHYVVE 100
    TLAKACDGAI SGEFAALVTG PVQKSIINDA GIPFIGHTEF FADRSHCQRV 150
    VMMLATEELR VALATTHLPL LAVPGAITQA SLHEVITILD NDLKTKFGIT 200
    QPQIYVCGLN PHAGEGGHMG HEEIDTIIPA LNTLRQQGIN LIGPLPADTL 250
    FQPKYLQHAD AVLAMYHDQG LPVLKYQGFG RAVNITLGLP FIRTSVDHGT 300
    ALELAATGTA DVGSFITALN LAIKMINNSN E 331
    Length:331
    Mass (Da):35,270
    Last modified:January 31, 2002 - v1
    Checksum:i9E7675F0F7D64349
    GO

    Sequence cautioni

    The sequence AAM87230.1 differs from that shown. Reason: Erroneous initiation.
    The sequence AAS63834.1 differs from that shown. Reason: Erroneous initiation.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL590842 Genomic DNA. Translation: CAL19173.1.
    AE009952 Genomic DNA. Translation: AAM87230.1. Different initiation.
    AE017042 Genomic DNA. Translation: AAS63834.1. Different initiation.
    PIRiAC0061.
    RefSeqiNP_670979.1. NC_004088.1.
    NP_994957.1. NC_005810.1.
    YP_002345566.1. NC_003143.1.

    Genome annotation databases

    EnsemblBacteriaiAAM87230; AAM87230; y3682.
    AAS63834; AAS63834; YP_3686.
    GeneIDi1148629.
    1173338.
    2764303.
    KEGGiype:YPO0493.
    ypk:y3682.
    ypm:YP_3686.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL590842 Genomic DNA. Translation: CAL19173.1 .
    AE009952 Genomic DNA. Translation: AAM87230.1 . Different initiation.
    AE017042 Genomic DNA. Translation: AAS63834.1 . Different initiation.
    PIRi AC0061.
    RefSeqi NP_670979.1. NC_004088.1.
    NP_994957.1. NC_005810.1.
    YP_002345566.1. NC_003143.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    3LXY X-ray 1.70 A 1-331 [» ]
    ProteinModelPortali P58719.
    SMRi P58719. Positions 7-329.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 214092.YPO0493.

    Protocols and materials databases

    DNASUi 1148629.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAM87230 ; AAM87230 ; y3682 .
    AAS63834 ; AAS63834 ; YP_3686 .
    GeneIDi 1148629.
    1173338.
    2764303.
    KEGGi ype:YPO0493.
    ypk:y3682.
    ypm:YP_3686.

    Phylogenomic databases

    eggNOGi COG1995.
    HOGENOMi HOG000221592.
    KOi K00097.
    OMAi DTLFQDK.
    OrthoDBi EOG6GN6ZC.

    Enzyme and pathway databases

    UniPathwayi UPA00244 ; UER00312 .
    BioCyci YPES214092:GKDD-489-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P58719.

    Family and domain databases

    Gene3Di 3.40.718.10. 1 hit.
    HAMAPi MF_00536. PdxA.
    InterProi IPR024084. IsoPropMal-DH-like_dom.
    IPR005255. PdxA.
    [Graphical view ]
    Pfami PF04166. PdxA. 1 hit.
    [Graphical view ]
    TIGRFAMsi TIGR00557. pdxA. 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.

    Entry informationi

    Entry nameiPDXA_YERPE
    AccessioniPrimary (citable) accession number: P58719
    Secondary accession number(s): Q0WJH2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 31, 2002
    Last sequence update: January 31, 2002
    Last modified: October 1, 2014
    This is version 97 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    The active site is located at the dimer interface.UniRule annotation

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

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

    External Data

    Dasty 3