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B2KDH2

- DAPF_ELUMP

UniProt

B2KDH2 - DAPF_ELUMP

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Elusimicrobium minutum (strain Pei191)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 47 (01 Oct 2014)
      Sequence version 1 (10 Jun 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 sitei44 – 441SubstrateUniRule annotation
    Binding sitei62 – 621SubstrateUniRule annotation
    Active sitei71 – 711Proton donor/acceptorUniRule annotation
    Binding sitei157 – 1571SubstrateUniRule annotation
    Sitei159 – 1591Important for catalytic activityUniRule annotation
    Binding sitei190 – 1901SubstrateUniRule annotation
    Sitei208 – 2081Important 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

    BioCyciEMIN445932:GHM0-1049-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:Emin_1015
    OrganismiElusimicrobium minutum (strain Pei191)
    Taxonomic identifieri445932 [NCBI]
    Taxonomic lineageiBacteriaElusimicrobiaElusimicrobiaElusimicrobialesElusimicrobiaceaeElusimicrobium
    ProteomesiUP000001029: 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 – 274274Diaminopimelate epimerasePRO_1000099235Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi71 ↔ 217

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi445932.Emin_1015.

    Structurei

    3D structure databases

    ProteinModelPortaliB2KDH2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni8 – 92Substrate bindingUniRule annotation
    Regioni71 – 733Substrate bindingUniRule annotation
    Regioni208 – 2092Substrate bindingUniRule annotation
    Regioni218 – 2192Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiVFDRYFL.
    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.

    B2KDH2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MEFVKYQGLG NDFILIDCVK IKIDGLNALG KKLCDRHFGI GADGLIAVFP    50
    SASADYKIRI INSDGTEPEM CGNGIRCAMR FVFDYIKPQR KLTFETLAGP 100
    IKTELLAENL VKVDMGAPKL TAAQIPLNIS DSDGRAVDIP VKLEGGKIKG 150
    TGVSMGNPHF VIFVEDIKKT DVAKTGKEVE NNTAFPQKTN VEFVQVITPS 200
    RLCMKVWERG VGITLACGTG ACASLVAGVL NNKTERLALV ELDGGQLTVE 250
    WPDDGASVFM TGPATEVFSG VFKE 274
    Length:274
    Mass (Da):29,503
    Last modified:June 10, 2008 - v1
    Checksum:i1BF0D0C1A6D25039
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001055 Genomic DNA. Translation: ACC98568.1.
    RefSeqiWP_012415183.1. NC_010644.1.
    YP_001875905.1. NC_010644.1.

    Genome annotation databases

    EnsemblBacteriaiACC98568; ACC98568; Emin_1015.
    GeneIDi6263152.
    KEGGiemi:Emin_1015.
    PATRICi21849252. VBIEluMin86178_1053.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001055 Genomic DNA. Translation: ACC98568.1 .
    RefSeqi WP_012415183.1. NC_010644.1.
    YP_001875905.1. NC_010644.1.

    3D structure databases

    ProteinModelPortali B2KDH2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 445932.Emin_1015.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACC98568 ; ACC98568 ; Emin_1015 .
    GeneIDi 6263152.
    KEGGi emi:Emin_1015.
    PATRICi 21849252. VBIEluMin86178_1053.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci EMIN445932:GHM0-1049-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. "Genomic analysis of 'Elusimicrobium minutum,' the first cultivated representative of the phylum 'Elusimicrobia' (formerly termite group 1)."
      Herlemann D.P.R., Geissinger O., Ikeda-Ohtsubo W., Kunin V., Sun H., Lapidus A., Hugenholtz P., Brune A.
      Appl. Environ. Microbiol. 75:2841-2849(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Pei191.

    Entry informationi

    Entry nameiDAPF_ELUMP
    AccessioniPrimary (citable) accession number: B2KDH2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: June 10, 2008
    Last modified: October 1, 2014
    This is version 47 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