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B3Q862

- DAPF_RHOPT

UniProt

B3Q862 - DAPF_RHOPT

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Rhodopseudomonas palustris (strain TIE-1)
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 (02 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 sitei17 – 171SubstrateUniRule annotation
    Binding sitei47 – 471SubstrateUniRule annotation
    Binding sitei67 – 671SubstrateUniRule annotation
    Active sitei76 – 761Proton donor/acceptorUniRule annotation
    Binding sitei164 – 1641SubstrateUniRule annotation
    Sitei166 – 1661Important for catalytic activityUniRule annotation
    Binding sitei197 – 1971SubstrateUniRule annotation
    Sitei215 – 2151Important for catalytic activityUniRule annotation
    Active sitei224 – 2241Proton 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

    BioCyciRPAL395960:GHPC-253-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:Rpal_0251
    OrganismiRhodopseudomonas palustris (strain TIE-1)
    Taxonomic identifieri395960 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeRhodopseudomonas
    ProteomesiUP000001725: 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 – 293293Diaminopimelate epimerasePRO_1000099260Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi76 ↔ 224

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi395960.Rpal_0251.

    Structurei

    3D structure databases

    ProteinModelPortaliB3Q862.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni14 – 152Substrate bindingUniRule annotation
    Regioni76 – 783Substrate bindingUniRule annotation
    Regioni215 – 2162Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiRPAENGA.
    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.

    B3Q862-1 [UniParc]FASTAAdd to Basket

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    MSALDNRLFA KMNGIGNEIV VVDLRDQPAP VTPADARAVA AHVPYDQLML    50
    LQPARLPGTE AFVRIYNNDG SESGACGNGM RCVARQMFAG SDKNGLTFET 100
    RAGLLNCWRG PADGLYTVDM GEPKFGWQDI PLAEEFRDTR MIELQIGPID 150
    APVLHTPSVV SMGNPHAIFW VDDVNAYDLG RFGPLLENHP IFPERANITL 200
    AHIVDRQHIT MRTWERGAGL TKACGSAACA TAVAAARLKR TDRTVEMTLP 250
    GGQLTIEWRD NDNHVLMTGG AEFEFEGRFD PALFAGALDP TGA 293
    Length:293
    Mass (Da):31,904
    Last modified:September 2, 2008 - v1
    Checksum:iFE62A4E6E200E122
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001096 Genomic DNA. Translation: ACE98811.1.
    RefSeqiWP_012494013.1. NC_011004.1.
    YP_001989287.1. NC_011004.1.

    Genome annotation databases

    EnsemblBacteriaiACE98811; ACE98811; Rpal_0251.
    GeneIDi6407895.
    KEGGirpt:Rpal_0251.
    PATRICi23304848. VBIRhoPal88240_0256.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001096 Genomic DNA. Translation: ACE98811.1 .
    RefSeqi WP_012494013.1. NC_011004.1.
    YP_001989287.1. NC_011004.1.

    3D structure databases

    ProteinModelPortali B3Q862.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 395960.Rpal_0251.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACE98811 ; ACE98811 ; Rpal_0251 .
    GeneIDi 6407895.
    KEGGi rpt:Rpal_0251.
    PATRICi 23304848. VBIRhoPal88240_0256.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci RPAL395960:GHPC-253-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: TIE-1.

    Entry informationi

    Entry nameiDAPF_RHOPT
    AccessioniPrimary (citable) accession number: B3Q862
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: September 2, 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

    Documents

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

    External Data

    Dasty 3