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Protein

Pyridoxal phosphate phosphatase YbhA

Gene

ybhA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalyzes the dephosphorylation of pyridoxal-phosphate (PLP). Can also hydrolyze erythrose-4-phosphate (Ery4P) and fructose-1,6-bis-phosphate (Fru1,6bisP).2 Publications

Caution

This ORF is coded on the other strand of an ORF which has been called modD (by PubMed:7665460 and PubMed:8564363), but which seems to be wrong.Curated

Catalytic activityi

Pyridoxal 5'-phosphate + H2O = pyridoxal + phosphate.1 Publication

Cofactori

Mg2+1 Publication, Mn2+1 Publication, Co2+1 Publication, Zn2+1 PublicationNote: Magnesium. Can also use other divalent metal cations as manganese, cobalt or zinc.1 Publication

Kineticsi

  1. KM=0.37 mM for PLP (in the presence of magnesium ion as cofactor and at pH 9)1 Publication
  2. KM=1.3 mM for Fru1,6bisP (in the presence of magnesium ion as cofactor and at pH 9)1 Publication

    pH dependencei

    Optimum pH is between 6 and 7.5.1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Active sitei9NucleophileBy similarity1
    Metal bindingi9MagnesiumBy similarity1
    Binding sitei10Phosphate; via amide nitrogenBy similarity1
    Metal bindingi11Magnesium; via carbonyl oxygenBy similarity1
    Binding sitei200PhosphateBy similarity1
    Metal bindingi223MagnesiumBy similarity1
    Binding sitei226PhosphateBy similarity1

    GO - Molecular functioni

    • magnesium ion binding Source: EcoliWiki
    • phosphatase activity Source: EcoliWiki
    • phosphotransferase activity, alcohol group as acceptor Source: EcoliWiki
    • pyridoxal phosphatase activity Source: EcoliWiki
    • sugar-phosphatase activity Source: EcoliWiki

    Keywordsi

    Molecular functionHydrolase
    LigandMagnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciEcoCyc:EG11239-MONOMER
    MetaCyc:EG11239-MONOMER

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Pyridoxal phosphate phosphatase YbhA (EC:3.1.3.74)
    Short name:
    PLP phosphatase
    Gene namesi
    Name:ybhA
    Ordered Locus Names:b0766, JW0749
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG11239 ybhA

    Subcellular locationi

    GO - Cellular componenti

    • cytosol Source: EcoCyc

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00000544201 – 272Pyridoxal phosphate phosphatase YbhAAdd BLAST272

    Proteomic databases

    PaxDbiP21829
    PRIDEiP21829

    Interactioni

    Protein-protein interaction databases

    BioGridi4261146, 12 interactors
    IntActiP21829, 3 interactors
    STRINGi316385.ECDH10B_0834

    Structurei

    3D structure databases

    ProteinModelPortaliP21829
    SMRiP21829
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni43 – 44Phosphate bindingBy similarity2

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiENOG4108K4B Bacteria
    COG0561 LUCA
    HOGENOMiHOG000184780
    InParanoidiP21829
    OMAiFSCEWSW
    PhylomeDBiP21829

    Family and domain databases

    Gene3Di3.40.50.1000, 2 hits
    InterProiView protein in InterPro
    IPR000150 Cof
    IPR036412 HAD-like_sf
    IPR006379 HAD-SF_hydro_IIB
    IPR023214 HAD_sf
    SUPFAMiSSF56784 SSF56784, 1 hit
    TIGRFAMsiTIGR00099 Cof-subfamily, 1 hit
    TIGR01484 HAD-SF-IIB, 1 hit
    PROSITEiView protein in PROSITE
    PS01228 COF_1, 1 hit
    PS01229 COF_2, 1 hit

    Sequencei

    Sequence statusi: Complete.

    P21829-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MTTRVIALDL DGTLLTPKKT LLPSSIEALA RAREAGYQLI IVTGRHHVAI
    60 70 80 90 100
    HPFYQALALD TPAICCNGTY LYDYHAKTVL EADPMPVIKA LQLIEMLNEH
    110 120 130 140 150
    HIHGLMYVDD AMVYEHPTGH VIRTSNWAQT LPPEQRPTFT QVASLAETAQ
    160 170 180 190 200
    QVNAVWKFAL THDDLPQLQH FGKHVEHELG LECEWSWHDQ VDIARGGNSK
    210 220 230 240 250
    GKRLTKWVEA QGWSMENVVA FGDNFNDISM LEAAGTGVAM GNADDAVKAR
    260 270
    ANIVIGDNTT DSIAQFIYSH LI
    Length:272
    Mass (Da):30,201
    Last modified:October 1, 1996 - v3
    Checksum:iBB4602AB4D26ACD2
    GO

    Sequence cautioni

    The sequence U07867 differs from that shown. Reason: Frameshift at position 217.Curated

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U27192 Genomic DNA Translation: AAB60177.1
    U07867 Genomic DNA No translation available.
    U00096 Genomic DNA Translation: AAC73853.1
    AP009048 Genomic DNA Translation: BAA35430.1
    PIRiF64812
    RefSeqiNP_415287.1, NC_000913.3
    WP_001300666.1, NZ_LN832404.1

    Genome annotation databases

    EnsemblBacteriaiAAC73853; AAC73853; b0766
    BAA35430; BAA35430; BAA35430
    GeneIDi945372
    KEGGiecj:JW0749
    eco:b0766
    PATRICifig|1411691.4.peg.1512

    Similar proteinsi

    Entry informationi

    Entry nameiYBHA_ECOLI
    AccessioniPrimary (citable) accession number: P21829
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 1991
    Last sequence update: October 1, 1996
    Last modified: March 28, 2018
    This is version 145 of the entry and version 3 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome
    UniProt is an ELIXIR core data resource
    Main funding by: National Institutes of Health