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B8FSD4

- DAPF_DESHD

UniProt

B8FSD4 - DAPF_DESHD

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Desulfitobacterium hafniense (strain DCB-2 / DSM 10664)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 36 (01 Oct 2014)
      Sequence version 1 (03 Mar 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 sitei11 – 111SubstrateUniRule annotation
    Binding sitei47 – 471SubstrateUniRule annotation
    Binding sitei65 – 651SubstrateUniRule annotation
    Active sitei74 – 741Proton donor/acceptorUniRule annotation
    Binding sitei163 – 1631SubstrateUniRule annotation
    Sitei165 – 1651Important for catalytic activityUniRule annotation
    Binding sitei196 – 1961SubstrateUniRule annotation
    Sitei214 – 2141Important for catalytic activityUniRule annotation
    Active sitei223 – 2231Proton 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

    BioCyciDHAF272564:GCV8-3984-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:Dhaf_3907
    OrganismiDesulfitobacterium hafniense (strain DCB-2 / DSM 10664)
    Taxonomic identifieri272564 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesPeptococcaceaeDesulfitobacterium
    ProteomesiUP000007726: 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 – 283283Diaminopimelate epimerasePRO_1000124411Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi74 ↔ 223

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi272564.Dhaf_3907.

    Structurei

    3D structure databases

    ProteinModelPortaliB8FSD4.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni8 – 92Substrate bindingUniRule annotation
    Regioni74 – 763Substrate bindingUniRule annotation
    Regioni214 – 2152Substrate bindingUniRule annotation
    Regioni224 – 2252Substrate 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.

    B8FSD4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MEIVKMHGLG NDFVFIDHFQ GAPAELPDYP ELARKLCHRQ FGVGGDGLIM    50
    VLPSDKADAR MRILNSDGSE PEMCGNGIRC FARYIYDQGY VSQNPLQVET 100
    LAGILTLQLS ITGDQVTGVR VDMGEPILKS EQVPVLIQGD PVVGARLDVD 150
    GQEFEFTAVS MGNPHCVLFV EDYETLDFER IGPAIEKHPL FPRKTNVEFI 200
    IVNSPRELTM KVWERGAGPT LACGTGACAS VVAAVLNGRT ERKVTVHLPG 250
    GDLLIEWGED NRVYMTGPAA YVFKGVLLED ALS 283
    Length:283
    Mass (Da):30,935
    Last modified:March 3, 2009 - v1
    Checksum:i6D12D739AED191F3
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001336 Genomic DNA. Translation: ACL21922.1.
    RefSeqiYP_002460358.1. NC_011830.1.

    Genome annotation databases

    EnsemblBacteriaiACL21922; ACL21922; Dhaf_3907.
    GeneIDi7260928.
    KEGGidhd:Dhaf_3907.
    PATRICi21665821. VBIDesHaf15223_4067.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001336 Genomic DNA. Translation: ACL21922.1 .
    RefSeqi YP_002460358.1. NC_011830.1.

    3D structure databases

    ProteinModelPortali B8FSD4.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 272564.Dhaf_3907.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACL21922 ; ACL21922 ; Dhaf_3907 .
    GeneIDi 7260928.
    KEGGi dhd:Dhaf_3907.
    PATRICi 21665821. VBIDesHaf15223_4067.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci DHAF272564:GCV8-3984-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 Desulfitobacterium hafniense DCB-2, a Gram-positive anaerobe capable of dehalogenation and metal reduction."
      Kim S.H., Harzman C., Davis J.K., Hutcheson R., Broderick J.B., Marsh T.L., Tiedje J.M.
      BMC Microbiol. 12:21-21(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DCB-2 / DSM 10664.

    Entry informationi

    Entry nameiDAPF_DESHD
    AccessioniPrimary (citable) accession number: B8FSD4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: March 3, 2009
    Last modified: October 1, 2014
    This is version 36 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

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3