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C0ZYN8

- DAPF_RHOE4

UniProt

C0ZYN8 - DAPF_RHOE4

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Rhodococcus erythropolis (strain PR4 / NBRC 100887)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 41 (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 sitei14 – 141SubstrateUniRule annotation
    Binding sitei47 – 471SubstrateUniRule annotation
    Binding sitei81 – 811SubstrateUniRule annotation
    Active sitei90 – 901Proton donor/acceptorUniRule annotation
    Binding sitei166 – 1661SubstrateUniRule annotation
    Sitei168 – 1681Important for catalytic activityUniRule annotation
    Binding sitei202 – 2021SubstrateUniRule annotation
    Sitei220 – 2201Important for catalytic activityUniRule annotation
    Active sitei229 – 2291Proton 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

    BioCyciRERY234621:GHDE-2793-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:RER_27650
    OrganismiRhodococcus erythropolis (strain PR4 / NBRC 100887)
    Taxonomic identifieri234621 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeNocardiaceaeRhodococcus
    ProteomesiUP000002204: 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 – 292292Diaminopimelate epimerasePRO_1000204065Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi90 ↔ 229

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi234621.RER_27650.

    Structurei

    3D structure databases

    ProteinModelPortaliC0ZYN8.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni90 – 923Substrate bindingUniRule annotation
    Regioni220 – 2212Substrate bindingUniRule annotation
    Regioni230 – 2312Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220467.
    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.

    C0ZYN8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MATMDFSKGH GTQNDFVVLP DLDVRVDLEP ARVSALCDRQ RGLGADGILR    50
    VARAGALADA GVLGALPDGV AAEDWFMDYR NSDGSIAEMC GNGVRVFAHY 100
    LKASGLESKD EFVVGSRAGA RPVVVHGYDA THGDVTVAMG PIKDLGTSSA 150
    TIDGRVFAGV GIDVGNPHLA CVDEHVTAEV LSALDLSVSP GFDPGFFPHG 200
    VNIEIVTPIH DGGVHMRVHE RGVGETRSCG TGTVAAAAAA LKFDGRDEGS 250
    VLVRVLGGEV QVTVEGGEGS LRGPSVLVAN GTISDAWWQS LV 292
    Length:292
    Mass (Da):30,225
    Last modified:May 26, 2009 - v1
    Checksum:i04394249808533A9
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008957 Genomic DNA. Translation: BAH33473.1.
    RefSeqiYP_002766212.1. NC_012490.1.

    Genome annotation databases

    EnsemblBacteriaiBAH33473; BAH33473; RER_27650.
    GeneIDi7710297.
    KEGGirer:RER_27650.
    PATRICi23191930. VBIRhoEry66701_3256.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP008957 Genomic DNA. Translation: BAH33473.1 .
    RefSeqi YP_002766212.1. NC_012490.1.

    3D structure databases

    ProteinModelPortali C0ZYN8.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 234621.RER_27650.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAH33473 ; BAH33473 ; RER_27650 .
    GeneIDi 7710297.
    KEGGi rer:RER_27650.
    PATRICi 23191930. VBIRhoEry66701_3256.

    Phylogenomic databases

    eggNOGi COG0253.
    HOGENOMi HOG000220467.
    KOi K01778.
    OMAi LIVEPPY.
    OrthoDBi EOG6ND0M5.

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci RERY234621:GHDE-2793-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. "Comparison of the complete genome sequences of Rhodococcus erythropolis PR4 and Rhodococcus opacus B4."
      Takarada H., Sekine M., Hosoyama A., Yamada R., Fujisawa T., Omata S., Shimizu A., Tsukatani N., Tanikawa S., Fujita N., Harayama S.
      Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: PR4 / NBRC 100887.

    Entry informationi

    Entry nameiDAPF_RHOE4
    AccessioniPrimary (citable) accession number: C0ZYN8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: May 26, 2009
    Last modified: October 1, 2014
    This is version 41 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