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C1D8Q0

- DAPF_LARHH

UniProt

C1D8Q0 - DAPF_LARHH

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Laribacter hongkongensis (strain HLHK9)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 39 (01 Oct 2014)
      Sequence version 1 (26 May 2009)
      Previous versions | rss
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    Functioni

    Catalyzes the stereoinversion of LL-2,6-diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso-DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan.UniRule annotation

    Catalytic activityi

    LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate.UniRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei13 – 131SubstrateUniRule annotation
    Binding sitei46 – 461SubstrateUniRule annotation
    Binding sitei66 – 661SubstrateUniRule annotation
    Active sitei75 – 751Proton donor/acceptorUniRule annotation
    Binding sitei159 – 1591SubstrateUniRule annotation
    Sitei161 – 1611Important for catalytic activityUniRule annotation
    Binding sitei192 – 1921SubstrateUniRule annotation
    Sitei210 – 2101Important for catalytic activityUniRule annotation
    Active sitei219 – 2191Proton donor/acceptorUniRule annotation

    GO - Molecular functioni

    1. diaminopimelate epimerase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. lysine biosynthetic process via diaminopimelate Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Isomerase

    Keywords - Biological processi

    Amino-acid biosynthesis, Lysine biosynthesis

    Enzyme and pathway databases

    BioCyciLHON557598:GHO5-1883-MONOMER.
    UniPathwayiUPA00034; UER00025.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Diaminopimelate epimeraseUniRule annotation (EC:5.1.1.7UniRule annotation)
    Short name:
    DAP epimeraseUniRule annotation
    Gene namesi
    Name:dapFUniRule annotation
    Ordered Locus Names:LHK_01856
    OrganismiLaribacter hongkongensis (strain HLHK9)
    Taxonomic identifieri557598 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNeisserialesChromobacteriaceaeLaribacter
    ProteomesiUP000002010: 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 – 278278Diaminopimelate epimerasePRO_1000124418Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi75 ↔ 219

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi557598.LHK_01856.

    Structurei

    3D structure databases

    ProteinModelPortaliC1D8Q0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni10 – 112Substrate bindingUniRule annotation
    Regioni75 – 773Substrate bindingUniRule annotation
    Regioni210 – 2112Substrate bindingUniRule annotation
    Regioni220 – 2212Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiLIVEPPY.
    OrthoDBiEOG6ND0M5.

    Family and domain databases

    HAMAPiMF_00197. DAP_epimerase.
    InterProiIPR018510. DAP_epimerase_AS.
    IPR001653. DAP_epimerase_DapF.
    [Graphical view]
    PANTHERiPTHR31689. PTHR31689. 1 hit.
    PfamiPF01678. DAP_epimerase. 2 hits.
    [Graphical view]
    TIGRFAMsiTIGR00652. DapF. 1 hit.
    PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    C1D8Q0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKLKFTKMQG LGNDFAVLDG VRQTIRLTPE QIRKLGDRRF GIGFDQLLLV    50
    EPPQDAGNDF SYRIFNCDGG EVEQCGNGAR CFARFVFDHG LTDRREIRVE 100
    TARGVIVPRL ADDGLVTVDM GPPRFRPADI PFVAAEDAVI HELEVAGQIL 150
    GVTVVSMGNP HAVQVVDDVD TAPVTAFGPL IENHLRFPAR VNAGFMQIES 200
    RTAICLRVFE RGSGETLACG TGACAAVVAG IRRGLLDADT PVTVQTRGGE 250
    LRIRWAGDGH PVWMTGPAVT VFEGEITL 278
    Length:278
    Mass (Da):30,140
    Last modified:May 26, 2009 - v1
    Checksum:i706015A739EAF75B
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001154 Genomic DNA. Translation: ACO74840.1.
    RefSeqiWP_012697326.1. NC_012559.1.
    YP_002795849.1. NC_012559.1.

    Genome annotation databases

    EnsemblBacteriaiACO74840; ACO74840; LHK_01856.
    GeneIDi7757469.
    KEGGilhk:LHK_01856.
    PATRICi22300619. VBILarHon49832_1702.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001154 Genomic DNA. Translation: ACO74840.1 .
    RefSeqi WP_012697326.1. NC_012559.1.
    YP_002795849.1. NC_012559.1.

    3D structure databases

    ProteinModelPortali C1D8Q0.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 557598.LHK_01856.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACO74840 ; ACO74840 ; LHK_01856 .
    GeneIDi 7757469.
    KEGGi lhk:LHK_01856.
    PATRICi 22300619. VBILarHon49832_1702.

    Phylogenomic databases

    eggNOGi COG0253.
    HOGENOMi HOG000220466.
    KOi K01778.
    OMAi LIVEPPY.
    OrthoDBi EOG6ND0M5.

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci LHON557598:GHO5-1883-MONOMER.

    Family and domain databases

    HAMAPi MF_00197. DAP_epimerase.
    InterProi IPR018510. DAP_epimerase_AS.
    IPR001653. DAP_epimerase_DapF.
    [Graphical view ]
    PANTHERi PTHR31689. PTHR31689. 1 hit.
    Pfami PF01678. DAP_epimerase. 2 hits.
    [Graphical view ]
    TIGRFAMsi TIGR00652. DapF. 1 hit.
    PROSITEi PS01326. DAP_EPIMERASE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The complete genome and proteome of Laribacter hongkongensis reveal potential mechanisms for adaptations to different temperatures and habitats."
      Woo P.C.Y., Lau S.K.P., Tse H., Teng J.L.L., Curreem S.O., Tsang A.K.L., Fan R.Y.Y., Wong G.K.M., Huang Y., Loman N.J., Snyder L.A.S., Cai J.J., Huang J.-D., Mak W., Pallen M.J., Lok S., Yuen K.-Y.
      PLoS Genet. 5:E1000416-E1000416(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: HLHK9.

    Entry informationi

    Entry nameiDAPF_LARHH
    AccessioniPrimary (citable) accession number: C1D8Q0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: May 26, 2009
    Last modified: October 1, 2014
    This is version 39 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