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A4YKA5

- DAPF_BRASO

UniProt

A4YKA5 - DAPF_BRASO

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Bradyrhizobium sp. (strain ORS278)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 49 (01 Oct 2014)
      Sequence version 1 (29 May 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 sitei17 – 171SubstrateUniRule annotation
    Binding sitei47 – 471SubstrateUniRule annotation
    Binding sitei67 – 671SubstrateUniRule annotation
    Active sitei76 – 761Proton donor/acceptorUniRule annotation
    Binding sitei164 – 1641SubstrateUniRule annotation
    Sitei166 – 1661Important for catalytic activityUniRule annotation
    Binding sitei198 – 1981SubstrateUniRule annotation
    Sitei216 – 2161Important for catalytic activityUniRule annotation
    Active sitei225 – 2251Proton 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

    BioCyciBSP114615:GJN5-363-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:BRADO0383
    OrganismiBradyrhizobium sp. (strain ORS278)
    Taxonomic identifieri114615 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
    ProteomesiUP000001994: 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 – 289289Diaminopimelate epimerasePRO_1000011849Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi76 ↔ 225

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi114615.BRADO0383.

    Structurei

    3D structure databases

    ProteinModelPortaliA4YKA5.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni14 – 152Substrate bindingUniRule annotation
    Regioni76 – 783Substrate bindingUniRule annotation
    Regioni216 – 2172Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiKMRIFNN.
    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.

    A4YKA5-1 [UniParc]FASTAAdd to Basket

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    MSPLANHSFV KMNGIGNEIV VLDLRDVKHV VTPDEARAVA SRVPYDQMMV    50
    LQRPRFDGTE AFIRIYNNDG SESGACGNGM RCVVSQVFGK TGQTSATFET 100
    RAGLLNCWQG PAPDLYTVDM GVPRFGWQDI PLAEEFRDTR YIELQIGPID 150
    APILHSPSVV SMGNPHAVFW VDNDVNSYDL ERFGPLLENH PIFPERANIT 200
    LAQIVDRDHI TMRTWERGAG LTRACGSAAC ATAVAAARLK RANRLVHMTL 250
    PGGELTIEWR ERDDHVLMTG TATFEFEGRF EPALFASVA 289
    Length:289
    Mass (Da):32,004
    Last modified:May 29, 2007 - v1
    Checksum:i9F77FD055754825C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CU234118 Genomic DNA. Translation: CAL74331.1.
    RefSeqiWP_011923612.1. NC_009445.1.
    YP_001202577.1. NC_009445.1.

    Genome annotation databases

    EnsemblBacteriaiCAL74331; CAL74331; BRADO0383.
    GeneIDi5116208.
    KEGGibra:BRADO0383.
    PATRICi21217074. VBIBraSp122330_0370.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CU234118 Genomic DNA. Translation: CAL74331.1 .
    RefSeqi WP_011923612.1. NC_009445.1.
    YP_001202577.1. NC_009445.1.

    3D structure databases

    ProteinModelPortali A4YKA5.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 114615.BRADO0383.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAL74331 ; CAL74331 ; BRADO0383 .
    GeneIDi 5116208.
    KEGGi bra:BRADO0383.
    PATRICi 21217074. VBIBraSp122330_0370.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci BSP114615:GJN5-363-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ORS278.

    Entry informationi

    Entry nameiDAPF_BRASO
    AccessioniPrimary (citable) accession number: A4YKA5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: May 29, 2007
    Last modified: October 1, 2014
    This is version 49 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