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A5CWN5

- DAPF_VESOH

UniProt

A5CWN5 - DAPF_VESOH

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Vesicomyosocius okutanii subsp. Calyptogena okutanii (strain HA)
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 (12 Jun 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 sitei13 – 131SubstrateUniRule annotation
    Binding sitei46 – 461SubstrateUniRule annotation
    Binding sitei66 – 661SubstrateUniRule annotation
    Active sitei75 – 751Proton donor/acceptorUniRule annotation
    Binding sitei155 – 1551SubstrateUniRule annotation
    Sitei157 – 1571Important for catalytic activityUniRule annotation
    Binding sitei188 – 1881SubstrateUniRule annotation
    Sitei206 – 2061Important for catalytic activityUniRule annotation
    Active sitei215 – 2151Proton 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

    BioCyciCVES412965:GHZZ-504-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:COSY_0505
    OrganismiVesicomyosocius okutanii subsp. Calyptogena okutanii (strain HA)
    Taxonomic identifieri412965 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriasulfur-oxidizing symbionts
    ProteomesiUP000000247: 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 – 271271Diaminopimelate epimerasePRO_1000011980Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi75 ↔ 215

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi412965.COSY_0505.

    Structurei

    3D structure databases

    ProteinModelPortaliA5CWN5.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni10 – 112Substrate bindingUniRule annotation
    Regioni75 – 773Substrate bindingUniRule annotation
    Regioni206 – 2072Substrate 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.

    A5CWN5-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLINFTKMHG LGNDFMVVDN LAGDITFNAK KITNLANRAF GIGFDQLLVV    50
    ETSNIRGVDF RYVIYNSNGS EVEQCGNGAR CFARFVNYKN LTHSNPITVK 100
    TRSNIISLHL NDDNTVCVDM GKPSFNPADI PLLVPQQSEY YQIEGFDLGA 150
    ISIGNPHCVM LVKDVNTIDV NTIALKIQQS ELLPNQANIG FMQILNTHEI 200
    NLRVYERGSE ETLACGSGAC AAVAYGVEQG LLKKNVVVHL SGGDALIEYT 250
    QGGHIFLSGP AQFVFEGQVE I 271
    Length:271
    Mass (Da):29,633
    Last modified:June 12, 2007 - v1
    Checksum:i0A9DC34BE57122A3
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009247 Genomic DNA. Translation: BAF61624.1.
    RefSeqiYP_001219348.1. NC_009465.1.

    Genome annotation databases

    EnsemblBacteriaiBAF61624; BAF61624; COSY_0505.
    GeneIDi5172099.
    KEGGivok:COSY_0505.
    PATRICi32020847. VBICanVes128383_0503.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009247 Genomic DNA. Translation: BAF61624.1 .
    RefSeqi YP_001219348.1. NC_009465.1.

    3D structure databases

    ProteinModelPortali A5CWN5.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 412965.COSY_0505.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAF61624 ; BAF61624 ; COSY_0505 .
    GeneIDi 5172099.
    KEGGi vok:COSY_0505.
    PATRICi 32020847. VBICanVes128383_0503.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci CVES412965:GHZZ-504-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. "Reduced genome of the thioautotrophic intracellular symbiont in a deep-sea clam, Calyptogena okutanii."
      Kuwahara H., Yoshida T., Takaki Y., Shimamura S., Nishi S., Harada M., Matsuyama K., Takishita K., Kawato M., Uematsu K., Fujiwara Y., Sato T., Kato C., Kitagawa M., Kato I., Maruyama T.
      Curr. Biol. 17:881-886(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: HA.

    Entry informationi

    Entry nameiDAPF_VESOH
    AccessioniPrimary (citable) accession number: A5CWN5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: June 12, 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

    Documents

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

    External Data

    Dasty 3