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Q3IZB6

- DAPF_RHOS4

UniProt

Q3IZB6 - DAPF_RHOS4

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 61 (01 Oct 2014)
      Sequence version 2 (19 Feb 2014)
      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 sitei20 – 201SubstrateUniRule annotation
    Binding sitei54 – 541SubstrateUniRule annotation
    Binding sitei72 – 721SubstrateUniRule annotation
    Active sitei81 – 811Proton donor/acceptorUniRule annotation
    Binding sitei158 – 1581SubstrateUniRule annotation
    Sitei160 – 1601Important for catalytic activityUniRule annotation
    Binding sitei191 – 1911SubstrateUniRule annotation
    Sitei209 – 2091Important for catalytic activityUniRule annotation
    Active sitei218 – 2181Proton 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

    BioCyciRSPH272943:GJAS-2611-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:RHOS4_25500
    ORF Names:RSP_0936
    OrganismiRhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
    Taxonomic identifieri272943 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter
    ProteomesiUP000002703: Chromosome 1

    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 – 279279Diaminopimelate epimerasePRO_1000071716Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi81 ↔ 218

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi272943.RSP_0936.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni81 – 833Substrate 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.
    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.

    Q3IZB6-1 [UniParc]FASTAAdd to Basket

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    MMDMGASSGL GFMKMHGAGN DFVVIDSRGR GGALVTAGLA RALGDRHRGV    50
    GFDQLAEIRD QEGADCALDF WNSDGSRSGT CGNATRCVSD YLMRDLGRDE 100
    VNLVTARGRL HARRREDGLV AVNMGAPQLL WSEIPLARAM ETDSLPLEGT 150
    PSAVGMGNPH CIYFVEDAEA VDLAGRGAAV ETDPLFPERT NVEFASLIGP 200
    DRLRLRVWER GAGITLACGS GACATAVAAA RRGLTGRQVR LEMDGGVLEV 250
    DWRDEGVWLS GPVARVFEGH LSPEMMALA 279
    Length:279
    Mass (Da):29,744
    Last modified:February 19, 2014 - v2
    Checksum:i258D2D8B4CD915D2
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000143 Genomic DNA. Translation: ABA80118.2.
    RefSeqiWP_017139968.1. NZ_AKVW01000001.1.
    YP_354019.2. NC_007493.2.

    Genome annotation databases

    EnsemblBacteriaiABA80118; ABA80118; RSP_0936.
    GeneIDi3717923.
    KEGGirsp:RSP_0936.
    PATRICi23155071. VBIRhoSph57909_2904.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000143 Genomic DNA. Translation: ABA80118.2 .
    RefSeqi WP_017139968.1. NZ_AKVW01000001.1.
    YP_354019.2. NC_007493.2.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 272943.RSP_0936.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABA80118 ; ABA80118 ; RSP_0936 .
    GeneIDi 3717923.
    KEGGi rsp:RSP_0936.
    PATRICi 23155071. VBIRhoSph57909_2904.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci RSPH272943:GJAS-2611-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. "Complete sequence of chromosome 1 of Rhodobacter sphaeroides 2.4.1."
      Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Richardson P., Mackenzie C., Choudhary M., Larimer F., Hauser L.J., Land M., Donohue T.J., Kaplan S.
      Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158.

    Entry informationi

    Entry nameiDAPF_RHOS4
    AccessioniPrimary (citable) accession number: Q3IZB6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 26, 2008
    Last sequence update: February 19, 2014
    Last modified: October 1, 2014
    This is version 61 of the entry and version 2 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