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P46357

- DAPF_YERPE

UniProt

P46357 - DAPF_YERPE

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Yersinia pestis
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 108 (01 Oct 2014)
      Sequence version 2 (16 Nov 2001)
      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 sitei64 – 641SubstrateUniRule annotation
    Active sitei73 – 731Proton 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

    BioCyciYPES214092:GKDD-3816-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:YPO3845, y0385, YP_3202
    OrganismiYersinia pestis
    Taxonomic identifieri632 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
    ProteomesiUP000000815: Chromosome, UP000001019: Chromosome, UP000002490: 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_0000149884Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi73 ↔ 217

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    IntActiP46357. 1 interaction.
    STRINGi214092.YPO3845.

    Structurei

    3D structure databases

    ProteinModelPortaliP46357.
    SMRiP46357. Positions 1-274.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni8 – 92Substrate bindingUniRule annotation
    Regioni73 – 753Substrate bindingUniRule annotation
    Regioni208 – 2092Substrate 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.

    P46357-1 [UniParc]FASTAAdd to Basket

    « Hide

    MQFSKMHGLG NDFMVVDAVT QNVYFSPELI RRLADRHTGV GFDQMLVVEP    50
    PYDPELDFHY RIFNADGSEV SQCGNGARCF ARFVRLKGLT NKREISVSTQ 100
    TGRMILSVTE DEQVCVNMGE PDFEPQTVPF RAAKAEKTYI LRAAEHTVLC 150
    GVVSMGNPHC VMQVDDVSVA NVALLGPVLE NHERFPERAN IGFMQVVSRD 200
    HIRLRVYERG AGETQACGSG ACAAVAVGVV QDLLNENVHV ELPGGSLHIR 250
    WQGPGHPLYM TGPATHVYDG FIHL 274
    Length:274
    Mass (Da):30,252
    Last modified:November 16, 2001 - v2
    Checksum:i8B66E79E67EB9FF1
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti136 – 1361E → Q in AAC44326. (PubMed:8874804)Curated
    Sequence conflicti186 – 19813PERAN…MQVVS → LSGQISALCRSSV in AAC44326. (PubMed:8874804)CuratedAdd
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL590842 Genomic DNA. Translation: CAL22432.1.
    AE009952 Genomic DNA. Translation: AAM83974.1.
    AE017042 Genomic DNA. Translation: AAS63370.1.
    U22968 Genomic DNA. Translation: AAC44326.1.
    PIRiAE0468.
    RefSeqiNP_667723.1. NC_004088.1.
    NP_994493.1. NC_005810.1.
    YP_002348723.1. NC_003143.1.

    Genome annotation databases

    EnsemblBacteriaiAAM83974; AAM83974; y0385.
    AAS63370; AAS63370; YP_3202.
    GeneIDi1145332.
    1176680.
    2765360.
    KEGGiype:YPO3845.
    ypk:y0385.
    ypm:YP_3202.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL590842 Genomic DNA. Translation: CAL22432.1 .
    AE009952 Genomic DNA. Translation: AAM83974.1 .
    AE017042 Genomic DNA. Translation: AAS63370.1 .
    U22968 Genomic DNA. Translation: AAC44326.1 .
    PIRi AE0468.
    RefSeqi NP_667723.1. NC_004088.1.
    NP_994493.1. NC_005810.1.
    YP_002348723.1. NC_003143.1.

    3D structure databases

    ProteinModelPortali P46357.
    SMRi P46357. Positions 1-274.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi P46357. 1 interaction.
    STRINGi 214092.YPO3845.

    Protocols and materials databases

    DNASUi 1145332.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAM83974 ; AAM83974 ; y0385 .
    AAS63370 ; AAS63370 ; YP_3202 .
    GeneIDi 1145332.
    1176680.
    2765360.
    KEGGi ype:YPO3845.
    ypk:y0385.
    ypm:YP_3202.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci YPES214092:GKDD-3816-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: CO-92 / Biovar Orientalis.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: KIM10+ / Biovar Mediaevalis.
    3. "Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans."
      Song Y., Tong Z., Wang J., Wang L., Guo Z., Han Y., Zhang J., Pei D., Zhou D., Qin H., Pang X., Han Y., Zhai J., Li M., Cui B., Qi Z., Jin L., Dai R.
      , Chen F., Li S., Ye C., Du Z., Lin W., Wang J., Yu J., Yang H., Wang J., Huang P., Yang R.
      DNA Res. 11:179-197(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 91001 / Biovar Mediaevalis.
    4. "Comparative analysis of the cya locus in enterobacteria and related Gram-negative facultative anaerobes."
      Trotot P., Sismeiro O., Vivares C., Glaser P., Bresson-Roy A., Danchin A.
      Biochimie 78:277-287(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-198.
      Strain: EV 40.

    Entry informationi

    Entry nameiDAPF_YERPE
    AccessioniPrimary (citable) accession number: P46357
    Secondary accession number(s): Q0WAG5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1995
    Last sequence update: November 16, 2001
    Last modified: October 1, 2014
    This is version 108 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