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A1B0C6

- PDXH_PARDP

UniProt

A1B0C6 - PDXH_PARDP

Protein

Pyridoxine/pyridoxamine 5'-phosphate oxidase

Gene

pdxH

Organism
Paracoccus denitrificans (strain Pd 1222)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 51 (01 Oct 2014)
      Sequence version 1 (23 Jan 2007)
      Previous versions | rss
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    Functioni

    Catalyzes the oxidation of either pyridoxine 5'-phosphate (PNP) or pyridoxamine 5'-phosphate (PMP) into pyridoxal 5'-phosphate (PLP).UniRule annotation

    Catalytic activityi

    Pyridoxamine 5'-phosphate + H2O + O2 = pyridoxal 5'-phosphate + NH3 + H2O2.UniRule annotation
    Pyridoxine 5'-phosphate + O2 = pyridoxal 5'-phosphate + H2O2.UniRule annotation

    Cofactori

    Binds 1 FMN per subunit.UniRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei49 – 491FMNUniRule annotation
    Binding sitei52 – 521FMN; via amide nitrogenUniRule annotation
    Binding sitei54 – 541SubstrateUniRule annotation
    Binding sitei75 – 751FMNUniRule annotation
    Binding sitei115 – 1151SubstrateUniRule annotation
    Binding sitei119 – 1191SubstrateUniRule annotation
    Binding sitei123 – 1231SubstrateUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi68 – 692FMNUniRule annotation
    Nucleotide bindingi132 – 1332FMNUniRule annotation

    GO - Molecular functioni

    1. FMN binding Source: UniProtKB-HAMAP
    2. pyridoxamine-phosphate oxidase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. pyridoxine biosynthetic process Source: UniProtKB-KW

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Pyridoxine biosynthesis

    Keywords - Ligandi

    Flavoprotein, FMN

    Enzyme and pathway databases

    BioCyciPDEN318586:GCVQ-870-MONOMER.
    UniPathwayiUPA00190; UER00304.
    UPA00190; UER00305.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Pyridoxine/pyridoxamine 5'-phosphate oxidaseUniRule annotation (EC:1.4.3.5UniRule annotation)
    Alternative name(s):
    PNP/PMP oxidaseUniRule annotation
    Short name:
    PNPOxUniRule annotation
    Pyridoxal 5'-phosphate synthaseUniRule annotation
    Gene namesi
    Name:pdxHUniRule annotation
    Ordered Locus Names:Pden_0858
    OrganismiParacoccus denitrificans (strain Pd 1222)
    Taxonomic identifieri318586 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus
    ProteomesiUP000000361: Chromosome 1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 220220Pyridoxine/pyridoxamine 5'-phosphate oxidasePRO_0000292312Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi318586.Pden_0858.

    Structurei

    3D structure databases

    ProteinModelPortaliA1B0C6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni182 – 1843Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the pyridoxamine 5'-phosphate oxidase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0259.
    HOGENOMiHOG000242755.
    KOiK00275.
    OMAiAVLHWKS.
    OrthoDBiEOG60KN2Z.

    Family and domain databases

    Gene3Di2.30.110.10. 1 hit.
    HAMAPiMF_01629. PdxH.
    InterProiIPR000659. Pyridox_Oxase.
    IPR019740. Pyridox_Oxase_CS.
    IPR011576. Pyridox_Oxase_FMN-bd.
    IPR019576. Pyridoxamine_oxidase_dimer_C.
    IPR012349. Split_barrel_FMN-bd.
    [Graphical view]
    PANTHERiPTHR10851. PTHR10851. 1 hit.
    PfamiPF10590. PNPOx_C. 1 hit.
    PF01243. Pyridox_oxidase. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000190. Pyd_amn-ph_oxd. 1 hit.
    SUPFAMiSSF50475. SSF50475. 1 hit.
    TIGRFAMsiTIGR00558. pdxH. 1 hit.
    PROSITEiPS01064. PYRIDOX_OXIDASE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    A1B0C6-1 [UniParc]FASTAAdd to Basket

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    MSDRGGIFAG DDPFAIARSW LAEAERTEPN DANAMALATV DADGLPDARM    50
    VLLKDIEGGA ADGSFVFYTN YESAKGVEIE ATGVAAFVMH WKSLRRQIRV 100
    RGHVTRVEPE LADAYYASRP LQSRIGAWAS RQSRPLASRG ALMAEVARLG 150
    ISLGLNPSRP PHWGGYRIHP VQIEFWADGA FRLHDRFRWT KSSYQGENSA 200
    LRDEGQEVPQ SLWQVCRLSP 220
    Length:220
    Mass (Da):24,399
    Last modified:January 23, 2007 - v1
    Checksum:i8915762E0887AAA9
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000489 Genomic DNA. Translation: ABL68970.1.
    RefSeqiWP_011747198.1. NC_008686.1.
    YP_914666.1. NC_008686.1.

    Genome annotation databases

    EnsemblBacteriaiABL68970; ABL68970; Pden_0858.
    GeneIDi4578655.
    KEGGipde:Pden_0858.
    PATRICi22852874. VBIParDen97112_0836.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000489 Genomic DNA. Translation: ABL68970.1 .
    RefSeqi WP_011747198.1. NC_008686.1.
    YP_914666.1. NC_008686.1.

    3D structure databases

    ProteinModelPortali A1B0C6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 318586.Pden_0858.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABL68970 ; ABL68970 ; Pden_0858 .
    GeneIDi 4578655.
    KEGGi pde:Pden_0858.
    PATRICi 22852874. VBIParDen97112_0836.

    Phylogenomic databases

    eggNOGi COG0259.
    HOGENOMi HOG000242755.
    KOi K00275.
    OMAi AVLHWKS.
    OrthoDBi EOG60KN2Z.

    Enzyme and pathway databases

    UniPathwayi UPA00190 ; UER00304 .
    UPA00190 ; UER00305 .
    BioCyci PDEN318586:GCVQ-870-MONOMER.

    Family and domain databases

    Gene3Di 2.30.110.10. 1 hit.
    HAMAPi MF_01629. PdxH.
    InterProi IPR000659. Pyridox_Oxase.
    IPR019740. Pyridox_Oxase_CS.
    IPR011576. Pyridox_Oxase_FMN-bd.
    IPR019576. Pyridoxamine_oxidase_dimer_C.
    IPR012349. Split_barrel_FMN-bd.
    [Graphical view ]
    PANTHERi PTHR10851. PTHR10851. 1 hit.
    Pfami PF10590. PNPOx_C. 1 hit.
    PF01243. Pyridox_oxidase. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF000190. Pyd_amn-ph_oxd. 1 hit.
    SUPFAMi SSF50475. SSF50475. 1 hit.
    TIGRFAMsi TIGR00558. pdxH. 1 hit.
    PROSITEi PS01064. PYRIDOX_OXIDASE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Pd 1222.

    Entry informationi

    Entry nameiPDXH_PARDP
    AccessioniPrimary (citable) accession number: A1B0C6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 26, 2007
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 51 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. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3