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Q21P78

- DAPF_SACD2

UniProt

Q21P78 - DAPF_SACD2

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Saccharophagus degradans (strain 2-40 / ATCC 43961 / DSM 17024)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 59 (01 Oct 2014)
      Sequence version 1 (18 Apr 2006)
      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 sitei160 – 1601SubstrateUniRule annotation
    Sitei162 – 1621Important for catalytic activityUniRule annotation
    Binding sitei193 – 1931SubstrateUniRule annotation
    Sitei211 – 2111Important for catalytic activityUniRule annotation
    Active sitei220 – 2201Proton 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

    BioCyciSDEG203122:GI2M-238-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:Sde_0237
    OrganismiSaccharophagus degradans (strain 2-40 / ATCC 43961 / DSM 17024)
    Taxonomic identifieri203122 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesAlteromonadaceaeSaccharophagus
    ProteomesiUP000001947: 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 – 277277Diaminopimelate epimerasePRO_1000011957Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi75 ↔ 220

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi203122.Sde_0237.

    Structurei

    3D structure databases

    ProteinModelPortaliQ21P78.
    SMRiQ21P78. Positions 3-277.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni10 – 112Substrate bindingUniRule annotation
    Regioni75 – 773Substrate bindingUniRule annotation
    Regioni211 – 2122Substrate bindingUniRule annotation
    Regioni221 – 2222Substrate 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.

    Q21P78-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRLRFTKMHG LGNDFVMIDA ISQRVTITPE RARQLADRHF GVGCDQVLVV    50
    ETPDSPDADF KYRIFNHDGS EVENCGNGAR CFAVFVRQRG LTAKSVITVE 100
    TAVGRMVLHV QEDDQVTVDM GAPILSPADI PLAAPQQATS YTLPTQGAGD 150
    ITIGAVSMGN PHAVYCVNDC KTAPVETLGP EIEAHPHFPK KVNAGFMQVV 200
    SPSEINLRVY ERGAGETLAC GTGACAAVVA GRLQGLLENT VKVNLPGGSL 250
    SITWEGVDSP VMMTGPATTV FHGQVKI 277
    Length:277
    Mass (Da):29,528
    Last modified:April 18, 2006 - v1
    Checksum:i8D4FB99814117036
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000282 Genomic DNA. Translation: ABD79501.1.
    RefSeqiWP_011466725.1. NC_007912.1.
    YP_525713.1. NC_007912.1.

    Genome annotation databases

    EnsemblBacteriaiABD79501; ABD79501; Sde_0237.
    GeneIDi3968079.
    KEGGisde:Sde_0237.
    PATRICi23399103. VBISacDeg56404_0259.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000282 Genomic DNA. Translation: ABD79501.1 .
    RefSeqi WP_011466725.1. NC_007912.1.
    YP_525713.1. NC_007912.1.

    3D structure databases

    ProteinModelPortali Q21P78.
    SMRi Q21P78. Positions 3-277.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 203122.Sde_0237.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABD79501 ; ABD79501 ; Sde_0237 .
    GeneIDi 3968079.
    KEGGi sde:Sde_0237.
    PATRICi 23399103. VBISacDeg56404_0259.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci SDEG203122:GI2M-238-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: 2-40 / ATCC 43961 / DSM 17024.

    Entry informationi

    Entry nameiDAPF_SACD2
    AccessioniPrimary (citable) accession number: Q21P78
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: April 18, 2006
    Last modified: October 1, 2014
    This is version 59 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