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A2SKV9

- DAPF_METPP

UniProt

A2SKV9 - DAPF_METPP

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Methylibium petroleiphilum (strain PM1)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 54 (01 Oct 2014)
      Sequence version 1 (06 Mar 2007)
      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 sitei166 – 1661SubstrateUniRule annotation
    Sitei168 – 1681Important for catalytic activityUniRule annotation
    Binding sitei204 – 2041SubstrateUniRule annotation
    Sitei222 – 2221Important for catalytic activityUniRule annotation
    Active sitei231 – 2311Proton 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

    BioCyciMPET420662:GHBE-3283-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:Mpe_A3245
    OrganismiMethylibium petroleiphilum (strain PM1)
    Taxonomic identifieri420662 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesMethylibium
    ProteomesiUP000000366: 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 – 296296Diaminopimelate epimerasePRO_1000011904Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi75 ↔ 231

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi420662.Mpe_A3245.

    Structurei

    3D structure databases

    ProteinModelPortaliA2SKV9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni75 – 773Substrate bindingUniRule annotation
    Regioni222 – 2232Substrate bindingUniRule annotation
    Regioni232 – 2332Substrate 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.

    A2SKV9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKLRFTKMQG AGNDFVVLDA TREPLTLSPA QYRYLADRRF GVGADQVLIV    50
    GASDEPGIDF TYRIVNADGS EVEQCGNGAR CFVRYVREAG LTKKSAIRVR 100
    TAGGVIEPRW LVDGRVTVDM GAPVFEPARV PFDAAGLQPR ELNGFALWPL 150
    DAADRTVEAA VVSMGNPHAV MNVAQFGSGG VDEAPVAELG PLVERHTRFP 200
    QRVNAGFLQV LSDTHVKLRV YERGAGETLA CGTGACAAVV AGIRLGWLRA 250
    GTPVDVDTRG GELTIEWAGR SDAPVWMTGP AESVYVGEID LPEQGD 296
    Length:296
    Mass (Da):31,697
    Last modified:March 6, 2007 - v1
    Checksum:i7AB9E380A6C0A088
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000555 Genomic DNA. Translation: ABM96198.1.
    RefSeqiYP_001022433.1. NC_008825.1.

    Genome annotation databases

    EnsemblBacteriaiABM96198; ABM96198; Mpe_A3245.
    GeneIDi4786524.
    KEGGimpt:Mpe_A3245.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000555 Genomic DNA. Translation: ABM96198.1 .
    RefSeqi YP_001022433.1. NC_008825.1.

    3D structure databases

    ProteinModelPortali A2SKV9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 420662.Mpe_A3245.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABM96198 ; ABM96198 ; Mpe_A3245 .
    GeneIDi 4786524.
    KEGGi mpt:Mpe_A3245.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci MPET420662:GHBE-3283-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. "Whole-genome analysis of the methyl tert-butyl ether-degrading beta-proteobacterium Methylibium petroleiphilum PM1."
      Kane S.R., Chakicherla A.Y., Chain P.S.G., Schmidt R., Shin M.W., Legler T.C., Scow K.M., Larimer F.W., Lucas S.M., Richardson P.M., Hristova K.R.
      J. Bacteriol. 189:1931-1945(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: PM1.

    Entry informationi

    Entry nameiDAPF_METPP
    AccessioniPrimary (citable) accession number: A2SKV9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: March 6, 2007
    Last modified: October 1, 2014
    This is version 54 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