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Protein

D-alanyl-D-alanine dipeptidase

Gene

ddpX

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

Functioni

Catalyzes hydrolysis of the D-alanyl-D-alanine dipeptide. May have a role in cell-wall turnover.UniRule annotation1 Publication

Catalytic activityi

D-Ala-D-Ala + H2O = 2 D-Ala.UniRule annotation1 Publication

Cofactori

Zn2+1 PublicationNote: Binds 1 zinc ion per subunit.1 Publication

Kineticsi

Kcat is 170 sec(-1) with D-Ala-D-Ala. Kcat is 70 sec(-1) with L-Ala-D-Ala.
  1. KM=1.4 mM for D-Ala-D-Ala1 Publication
  2. KM=550 mM for L-Ala-D-Ala1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sitei71Transition state stabilizerUniRule annotation1
    Metal bindingi98Zinc; via tele nitrogen; catalyticUniRule annotation1
    Metal bindingi105Zinc; catalyticUniRule annotation1
    Active sitei162Proton donor/acceptorUniRule annotation1
    Metal bindingi165Zinc; via pros nitrogen; catalyticUniRule annotation1

    GO - Molecular functioni

    • dipeptidase activity Source: UniProtKB-UniRule
    • zinc D-Ala-D-Ala carboxypeptidase activity Source: EcoCyc
    • zinc ion binding Source: UniProtKB-UniRule

    GO - Biological processi

    • cell wall organization Source: UniProtKB-KW
    • response to starvation Source: EcoCyc

    Keywordsi

    Molecular functionDipeptidase, Hydrolase, Metalloprotease, Protease
    Biological processCell wall biogenesis/degradation
    LigandMetal-binding, Zinc

    Enzyme and pathway databases

    BioCyciEcoCyc:G6782-MONOMER
    MetaCyc:G6782-MONOMER

    Protein family/group databases

    MEROPSiM15.011

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    D-alanyl-D-alanine dipeptidaseUniRule annotation (EC:3.4.13.22UniRule annotation)
    Short name:
    D-Ala-D-Ala dipeptidaseUniRule annotation
    Gene namesi
    Name:ddpXUniRule annotation
    Synonyms:vanX1 Publication, yddT
    Ordered Locus Names:b1488, JW1483
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG13791 ddpX

    Subcellular locationi

    GO - Cellular componenti

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00002178371 – 193D-alanyl-D-alanine dipeptidaseAdd BLAST193

    Proteomic databases

    PaxDbiP77790
    PRIDEiP77790

    Interactioni

    Protein-protein interaction databases

    BioGridi4259362, 255 interactors
    DIPiDIP-9418N
    STRINGi316385.ECDH10B_1619

    Structurei

    3D structure databases

    ProteinModelPortaliP77790
    SMRiP77790
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the peptidase M15D family.UniRule annotation

    Phylogenomic databases

    eggNOGiENOG4108UQS Bacteria
    COG2173 LUCA
    HOGENOMiHOG000200848
    InParanoidiP77790
    KOiK08641
    OMAiIRTEWWH
    PhylomeDBiP77790

    Family and domain databases

    Gene3Di3.30.1380.10, 1 hit
    HAMAPiMF_01924 A_A_dipeptidase, 1 hit
    InterProiView protein in InterPro
    IPR000755 A_A_dipeptidase
    IPR009045 Hedgehog_sig/DD-Pept_Zn-bd_sf
    PfamiView protein in Pfam
    PF01427 Peptidase_M15, 1 hit
    PIRSFiPIRSF026671 AA_dipeptidase, 1 hit
    SUPFAMiSSF55166 SSF55166, 1 hit

    Sequencei

    Sequence statusi: Complete.

    P77790-1 [UniParc]FASTAAdd to basket
    « Hide
            10         20         30         40         50
    MSDTTELVDL AVIFPDLEIE LKYACADNIT GKAIYQQARC LLHKDAITAL
    60 70 80 90 100
    AKSISIAQLS GLQLVIYDAY RPQQAQAMLW QACPDPQYVV DVTVGSNHSR
    110 120 130 140 150
    GTAIDLTLRD EHGNILDMGA GFDEMHERSH AYHPSVPPAA QRNRLLLNAI
    160 170 180 190
    MTGGGFVGIS SEWWHFELPQ AASYPLLADQ FSCFISPGTQ HVS
    Length:193
    Mass (Da):21,213
    Last modified:February 1, 1997 - v1
    Checksum:i6933AAD3FCCD684F
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U00096 Genomic DNA Translation: AAC74561.1
    AP009048 Genomic DNA Translation: BAA15143.1
    PIRiC64902
    RefSeqiNP_416005.1, NC_000913.3
    WP_001285833.1, NZ_LN832404.1

    Genome annotation databases

    EnsemblBacteriaiAAC74561; AAC74561; b1488
    BAA15143; BAA15143; BAA15143
    GeneIDi945532
    KEGGiecj:JW1483
    eco:b1488
    PATRICifig|1411691.4.peg.779

    Similar proteinsi

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U00096 Genomic DNA Translation: AAC74561.1
    AP009048 Genomic DNA Translation: BAA15143.1
    PIRiC64902
    RefSeqiNP_416005.1, NC_000913.3
    WP_001285833.1, NZ_LN832404.1

    3D structure databases

    ProteinModelPortaliP77790
    SMRiP77790
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi4259362, 255 interactors
    DIPiDIP-9418N
    STRINGi316385.ECDH10B_1619

    Protein family/group databases

    MEROPSiM15.011

    Proteomic databases

    PaxDbiP77790
    PRIDEiP77790

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAC74561; AAC74561; b1488
    BAA15143; BAA15143; BAA15143
    GeneIDi945532
    KEGGiecj:JW1483
    eco:b1488
    PATRICifig|1411691.4.peg.779

    Organism-specific databases

    EchoBASEiEB3552
    EcoGeneiEG13791 ddpX

    Phylogenomic databases

    eggNOGiENOG4108UQS Bacteria
    COG2173 LUCA
    HOGENOMiHOG000200848
    InParanoidiP77790
    KOiK08641
    OMAiIRTEWWH
    PhylomeDBiP77790

    Enzyme and pathway databases

    BioCyciEcoCyc:G6782-MONOMER
    MetaCyc:G6782-MONOMER

    Miscellaneous databases

    PROiPR:P77790

    Family and domain databases

    Gene3Di3.30.1380.10, 1 hit
    HAMAPiMF_01924 A_A_dipeptidase, 1 hit
    InterProiView protein in InterPro
    IPR000755 A_A_dipeptidase
    IPR009045 Hedgehog_sig/DD-Pept_Zn-bd_sf
    PfamiView protein in Pfam
    PF01427 Peptidase_M15, 1 hit
    PIRSFiPIRSF026671 AA_dipeptidase, 1 hit
    SUPFAMiSSF55166 SSF55166, 1 hit
    ProtoNetiSearch...

    Entry informationi

    Entry nameiDDPX_ECOLI
    AccessioniPrimary (citable) accession number: P77790
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 27, 2001
    Last sequence update: February 1, 1997
    Last modified: October 10, 2018
    This is version 133 of the entry and version 1 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Peptidase families
      Classification of peptidase families and list of entries
    2. SIMILARITY comments
      Index of protein domains and families
    3. Escherichia coli
      Escherichia coli (strain K12): entries and cross-references to EcoGene
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