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B6JAP3

- DAPF_OLICO

UniProt

B6JAP3 - DAPF_OLICO

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5)
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 (16 Dec 2008)
      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 sitei17 – 171SubstrateUniRule annotation
    Binding sitei49 – 491SubstrateUniRule annotation
    Binding sitei69 – 691SubstrateUniRule annotation
    Active sitei78 – 781Proton donor/acceptorUniRule annotation
    Binding sitei166 – 1661SubstrateUniRule annotation
    Sitei168 – 1681Important for catalytic activityUniRule annotation
    Binding sitei199 – 1991SubstrateUniRule annotation
    Sitei217 – 2171Important for catalytic activityUniRule annotation
    Active sitei226 – 2261Proton 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

    BioCyciOCAR504832:GJPZ-255-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:OCAR_4263, OCA5_c02550
    OrganismiOligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5)
    Taxonomic identifieri504832 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeOligotropha
    ProteomesiUP000001678: Chromosome, UP000007730: 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 – 290290Diaminopimelate epimerasePRO_1000099253Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi78 ↔ 226

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi504832.OCAR_4263.

    Structurei

    3D structure databases

    ProteinModelPortaliB6JAP3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni14 – 152Substrate bindingUniRule annotation
    Regioni78 – 803Substrate bindingUniRule annotation
    Regioni217 – 2182Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiRPAENGA.
    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.

    B6JAP3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTVLANHSFA KMNGIGNEIV IVDLRNTDSQ LSAAEARAIA APGGVPYDQL    50
    MVLQKPRMPG TTAFVRIYNN DGSEAGACGN GMRCVAKRVF GESGAQAATF 100
    ETRAGLLNCW QGPSPDLYTV DMGTPKFGWQ DIPLAEEFRD TRYIELQIGP 150
    IDAPVLHSPS VVSMGNPHAI FWVDDIEAYD LERLGPLLEN HPIFPERANI 200
    TLAHVVDRNH IRMRTWERGA GLTLACGSAA CATAVAAARL KRTDRTVEMS 250
    LPGGDLTIEW RESDDHVLMT GAAVLEYEGL FDPDLFAALA 290
    Length:290
    Mass (Da):31,496
    Last modified:December 16, 2008 - v1
    Checksum:i55349272902037E0
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001196 Genomic DNA. Translation: ACI91412.1.
    CP002826 Genomic DNA. Translation: AEI04984.1.
    RefSeqiYP_002287277.1. NC_011386.1.
    YP_004631225.1. NC_015684.1.

    Genome annotation databases

    EnsemblBacteriaiACI91412; ACI91412; OCAR_4263.
    AEI04984; AEI04984; OCA5_c02550.
    GeneIDi10845387.
    6993020.
    KEGGioca:OCAR_4263.
    ocg:OCA5_c02550.
    PATRICi22802509. VBIOliCar134280_0245.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001196 Genomic DNA. Translation: ACI91412.1 .
    CP002826 Genomic DNA. Translation: AEI04984.1 .
    RefSeqi YP_002287277.1. NC_011386.1.
    YP_004631225.1. NC_015684.1.

    3D structure databases

    ProteinModelPortali B6JAP3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 504832.OCAR_4263.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACI91412 ; ACI91412 ; OCAR_4263 .
    AEI04984 ; AEI04984 ; OCA5_c02550 .
    GeneIDi 10845387.
    6993020.
    KEGGi oca:OCAR_4263.
    ocg:OCA5_c02550.
    PATRICi 22802509. VBIOliCar134280_0245.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci OCAR504832:GJPZ-255-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. "Genome sequence of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5T."
      Paul D., Bridges S., Burgess S.C., Dandass Y., Lawrence M.L.
      J. Bacteriol. 190:5531-5532(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 49405 / DSM 1227 / OM5.
    2. "Complete genome sequences of the chemolithoautotrophic Oligotropha carboxidovorans strains OM4 and OM5."
      Volland S., Rachinger M., Strittmatter A., Daniel R., Gottschalk G., Meyer O.
      J. Bacteriol. 193:5043-5043(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 49405 / DSM 1227 / OM5.

    Entry informationi

    Entry nameiDAPF_OLICO
    AccessioniPrimary (citable) accession number: B6JAP3
    Secondary accession number(s): F8BTD9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: December 16, 2008
    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