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C1A8U3

- DAPF_GEMAT

UniProt

C1A8U3 - DAPF_GEMAT

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Gemmatimonas aurantiaca (strain T-27 / DSM 14586 / JCM 11422 / NBRC 100505)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 32 (01 Oct 2014)
      Sequence version 1 (26 May 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 sitei46 – 461SubstrateUniRule annotation
    Binding sitei65 – 651SubstrateUniRule annotation
    Active sitei74 – 741Proton donor/acceptorUniRule annotation
    Sitei148 – 1481Important for catalytic activityUniRule annotation
    Binding sitei180 – 1801SubstrateUniRule annotation
    Sitei198 – 1981Important for catalytic activityUniRule annotation
    Active sitei208 – 2081Proton 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

    BioCyciGAUR379066:GI3W-1640-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:GAU_1611
    OrganismiGemmatimonas aurantiaca (strain T-27 / DSM 14586 / JCM 11422 / NBRC 100505)
    Taxonomic identifieri379066 [NCBI]
    Taxonomic lineageiBacteriaGemmatimonadetesGemmatimonadalesGemmatimonadaceaeGemmatimonas
    ProteomesiUP000002209: 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 – 277277Diaminopimelate epimerasePRO_1000204061Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi74 ↔ 208

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi379066.GAU_1611.

    Structurei

    3D structure databases

    ProteinModelPortaliC1A8U3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni74 – 763Substrate bindingUniRule annotation
    Regioni198 – 1992Substrate bindingUniRule annotation
    Regioni209 – 2102Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OrthoDBiEOG6ND0M5.

    Family and domain databases

    HAMAPiMF_00197. DAP_epimerase.
    InterProiIPR001653. DAP_epimerase_DapF.
    [Graphical view]
    PANTHERiPTHR31689. PTHR31689. 1 hit.
    PfamiPF01678. DAP_epimerase. 2 hits.
    [Graphical view]
    TIGRFAMsiTIGR00652. DapF. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    C1A8U3-1 [UniParc]FASTAAdd to Basket

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    MSFVKMTGSG NDFVFFDGRT TPIDLVTQPE AIKAICNRYN GIGADGLVVL    50
    EPLQEEADVR VHYYNSDGTA ADLCGNATLC STAISAQWGI TSASGMRLAT 100
    GAGLINSRID GLPAIALQPI TDIRPDMPIA PATAQGRRVG FAVAGIPHLV 150
    ILCEDADAVD VAGAGPALRR HEATGPAGAN VNWVSPRPDG SWRYRTFERG 200
    VEGETLACGT GAVATAVLLR SWGLSDGATT TIRTSSGRDV EVDLEPLTAP 250
    DGRSLEGFRP TLRGEGRVVF RGEIAGL 277
    Length:277
    Mass (Da):28,993
    Last modified:May 26, 2009 - v1
    Checksum:i729354861C6A19DF
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009153 Genomic DNA. Translation: BAH38653.1.
    RefSeqiYP_002761123.1. NC_012489.1.

    Genome annotation databases

    EnsemblBacteriaiBAH38653; BAH38653; GAU_1611.
    GeneIDi7704781.
    KEGGigau:GAU_1611.
    PATRICi21956116. VBIGemAur55831_1657.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009153 Genomic DNA. Translation: BAH38653.1 .
    RefSeqi YP_002761123.1. NC_012489.1.

    3D structure databases

    ProteinModelPortali C1A8U3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 379066.GAU_1611.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAH38653 ; BAH38653 ; GAU_1611 .
    GeneIDi 7704781.
    KEGGi gau:GAU_1611.
    PATRICi 21956116. VBIGemAur55831_1657.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci GAUR379066:GI3W-1640-MONOMER.

    Family and domain databases

    HAMAPi MF_00197. DAP_epimerase.
    InterProi IPR001653. DAP_epimerase_DapF.
    [Graphical view ]
    PANTHERi PTHR31689. PTHR31689. 1 hit.
    Pfami PF01678. DAP_epimerase. 2 hits.
    [Graphical view ]
    TIGRFAMsi TIGR00652. DapF. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of Gemmatimonas aurantiaca T-27 that represents a novel phylum Gemmatimonadetes."
      Takasaki K., Ichikawa N., Miura H., Matsushita S., Watanabe Y., Oguchi A., Ankai A., Yashiro I., Takahashi M., Terui Y., Fukui S., Yokoyama H., Tanikawa S., Hanada S., Kamagata Y., Fujita N.
      Submitted (MAR-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: T-27 / DSM 14586 / JCM 11422 / NBRC 100505.

    Entry informationi

    Entry nameiDAPF_GEMAT
    AccessioniPrimary (citable) accession number: C1A8U3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: May 26, 2009
    Last modified: October 1, 2014
    This is version 32 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