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Q0BS04

- DAPF_GRABC

UniProt

Q0BS04 - DAPF_GRABC

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Granulibacter bethesdensis (strain ATCC BAA-1260 / CGDNIH1)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 57 (01 Oct 2014)
      Sequence version 1 (17 Oct 2006)
      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 sitei47 – 471SubstrateUniRule annotation
    Binding sitei65 – 651SubstrateUniRule annotation
    Active sitei74 – 741Proton donor/acceptorUniRule annotation
    Binding sitei153 – 1531SubstrateUniRule annotation
    Sitei155 – 1551Important for catalytic activityUniRule annotation
    Binding sitei186 – 1861SubstrateUniRule annotation
    Sitei204 – 2041Important for catalytic activityUniRule annotation
    Active sitei213 – 2131Proton 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

    BioCyciGBET391165:GHON-1537-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:GbCGDNIH1_1500
    OrganismiGranulibacter bethesdensis (strain ATCC BAA-1260 / CGDNIH1)
    Taxonomic identifieri391165 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesAcetobacteraceaeGranulibacter
    ProteomesiUP000001963: 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 – 275275Diaminopimelate epimerasePRO_1000011883Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi74 ↔ 213

    Keywords - PTMi

    Disulfide bond

    Proteomic databases

    PRIDEiQ0BS04.

    Interactioni

    Protein-protein interaction databases

    STRINGi391165.GbCGDNIH1_1500.

    Structurei

    3D structure databases

    ProteinModelPortaliQ0BS04.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni10 – 112Substrate bindingUniRule annotation
    Regioni74 – 763Substrate bindingUniRule annotation
    Regioni204 – 2052Substrate bindingUniRule annotation
    Regioni214 – 2152Substrate 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.

    Q0BS04-1 [UniParc]FASTAAdd to Basket

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    MLIDFIKMHG LGNDFVVFDA RKGPSLALSG SQAAAIADRR TGVGCDQLIV    50
    LEPSTVADAF MRIYNPDGSE SGACGNATRC VADLLHRDGI AAPCMETVAG 100
    LLLAEINGNG ICIDMGQPGL GWRDVPLARE MDTLFLPLEA PGLKMPAACS 150
    MGNPHATFFV ADLAELDIPV TGPLLERHPL FPERANIGHA QMLSRSHIRL 200
    RVWERGAGLT LACGTGACAT LVNAVRRGLA EREAVVELDG GQLLIHWREQ 250
    DGHVLMTGPA ATVFHGRIAL ESITG 275
    Length:275
    Mass (Da):29,192
    Last modified:October 17, 2006 - v1
    Checksum:iC4C11D4AD427317A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000394 Genomic DNA. Translation: ABI62398.1.
    RefSeqiYP_745321.1. NC_008343.1.

    Genome annotation databases

    EnsemblBacteriaiABI62398; ABI62398; GbCGDNIH1_1500.
    GeneIDi4275809.
    KEGGigbe:GbCGDNIH1_1500.
    PATRICi22079183. VBIGraBet83793_1553.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000394 Genomic DNA. Translation: ABI62398.1 .
    RefSeqi YP_745321.1. NC_008343.1.

    3D structure databases

    ProteinModelPortali Q0BS04.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 391165.GbCGDNIH1_1500.

    Proteomic databases

    PRIDEi Q0BS04.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABI62398 ; ABI62398 ; GbCGDNIH1_1500 .
    GeneIDi 4275809.
    KEGGi gbe:GbCGDNIH1_1500.
    PATRICi 22079183. VBIGraBet83793_1553.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci GBET391165:GHON-1537-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 analysis of the emerging human pathogenic acetic acid bacterium Granulibacter bethesdensis."
      Greenberg D.E., Porcella S.F., Zelazny A.M., Virtaneva K., Sturdevant D.E., Kupko J.J. III, Barbian K.D., Babar A., Dorward D.W., Holland S.M.
      J. Bacteriol. 189:8727-8736(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC BAA-1260 / CGDNIH1.

    Entry informationi

    Entry nameiDAPF_GRABC
    AccessioniPrimary (citable) accession number: Q0BS04
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: October 17, 2006
    Last modified: October 1, 2014
    This is version 57 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