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B4U9P0

- DAPF_HYDS0

UniProt

B4U9P0 - DAPF_HYDS0

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Hydrogenobaculum sp. (strain Y04AAS1)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 43 (01 Oct 2014)
      Sequence version 1 (23 Sep 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 sitei11 – 111SubstrateUniRule annotation
    Binding sitei52 – 521SubstrateUniRule annotation
    Binding sitei72 – 721SubstrateUniRule annotation
    Active sitei81 – 811Proton donor/acceptorUniRule annotation
    Sitei155 – 1551Important for catalytic activityUniRule annotation
    Binding sitei189 – 1891SubstrateUniRule annotation
    Sitei207 – 2071Important for catalytic activityUniRule annotation
    Active sitei217 – 2171Proton 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

    BioCyciHSP380749:GH30-1204-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:HY04AAS1_1165
    OrganismiHydrogenobaculum sp. (strain Y04AAS1)
    Taxonomic identifieri380749 [NCBI]
    Taxonomic lineageiBacteriaAquificaeAquificalesAquificaceaeHydrogenobaculum
    ProteomesiUP000001872: 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_1000099243Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi81 ↔ 217

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi380749.HY04AAS1_1165.

    Structurei

    3D structure databases

    ProteinModelPortaliB4U9P0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni81 – 833Substrate bindingUniRule annotation
    Regioni207 – 2082Substrate bindingUniRule annotation
    Regioni218 – 2192Substrate 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.

    B4U9P0-1 [UniParc]FASTAAdd to Basket

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    MLITKYQGSG NDFIIIDNRD NFVYKEIEKL GLSINEFVRK LCEQHTSVGA    50
    DGVILIEKAR NTKNHFSWAF FNADGSAAEM CGNGSRCAAR FAYEKDIAPK 100
    DIVFETIAGE IEAHIMDSKR VKVQLTPYHS HQKNIEIKTE YGTFKGHFVN 150
    TGVPHFVIFV DEDELDNLDV EKVGRAIRYH EYFAPKGTNV NFVAKTKNGS 200
    FRIRTYERGV EGETLACGTG SAACGINAYL LGLSASNIVD IITKSGELLK 250
    ITIENDKVFL EGPTTKVFEG MLSYEIF 277
    Length:277
    Mass (Da):30,932
    Last modified:September 23, 2008 - v1
    Checksum:i2A43015B831A96A9
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001130 Genomic DNA. Translation: ACG57851.1.
    RefSeqiWP_012514207.1. NC_011126.1.
    YP_002121829.1. NC_011126.1.

    Genome annotation databases

    EnsemblBacteriaiACG57851; ACG57851; HY04AAS1_1165.
    GeneIDi6743982.
    KEGGihya:HY04AAS1_1165.
    PATRICi22137028. VBIHydSp64203_1172.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001130 Genomic DNA. Translation: ACG57851.1 .
    RefSeqi WP_012514207.1. NC_011126.1.
    YP_002121829.1. NC_011126.1.

    3D structure databases

    ProteinModelPortali B4U9P0.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 380749.HY04AAS1_1165.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACG57851 ; ACG57851 ; HY04AAS1_1165 .
    GeneIDi 6743982.
    KEGGi hya:HY04AAS1_1165.
    PATRICi 22137028. VBIHydSp64203_1172.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci HSP380749:GH30-1204-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: Y04AAS1.

    Entry informationi

    Entry nameiDAPF_HYDS0
    AccessioniPrimary (citable) accession number: B4U9P0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: September 23, 2008
    Last modified: October 1, 2014
    This is version 43 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