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B1XP39

- DAPF_SYNP2

UniProt

B1XP39 - DAPF_SYNP2

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 47 (01 Oct 2014)
      Sequence version 1 (20 May 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 sitei13 – 131SubstrateUniRule annotation
    Binding sitei47 – 471SubstrateUniRule annotation
    Binding sitei66 – 661SubstrateUniRule annotation
    Active sitei75 – 751Proton 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

    BioCyciSSP32049:GKF7-1643-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:SYNPCC7002_A1642
    OrganismiSynechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)
    Taxonomic identifieri32049 [NCBI]
    Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
    ProteomesiUP000001688: 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 – 281281Diaminopimelate epimerasePRO_1000099269Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi75 ↔ 224

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi32049.SYNPCC7002_A1642.

    Structurei

    3D structure databases

    ProteinModelPortaliB1XP39.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni10 – 112Substrate bindingUniRule annotation
    Regioni75 – 773Substrate bindingUniRule annotation
    Regioni215 – 2162Substrate bindingUniRule annotation
    Regioni225 – 2262Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiRISEMEI.
    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.

    B1XP39-1 [UniParc]FASTAAdd to Basket

    « Hide

    MVLEFTKYQG LGNDFILLDN RQQTTPLVTP EQAIQLCDRH FGIGADGVIF    50
    ALPGQAGADY TMRIFNSDGS EPEMCGNGIR CLARFIDHLE GGNAPGKTYS 100
    IHTLAGMIRP RLETDALVRV DMGEPILTAT DIPTTLKDSN GQAVNQPLEV 150
    AGKTWMVTCV SMGNPHCITF VEDVAAIALE VIGKDFEHHP AFPQRINTEF 200
    IEVVRPDYIK MRVWERGAGI TLACGTGACA SVVAGVLTGH CDRLCTVELP 250
    GGCLQIEWSA ADNHIYMTGP AAISFQGQVT L 281
    Length:281
    Mass (Da):30,364
    Last modified:May 20, 2008 - v1
    Checksum:iAA2334C19A558FC2
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000951 Genomic DNA. Translation: ACA99632.1.
    RefSeqiWP_012307255.1. NC_010475.1.
    YP_001734888.1. NC_010475.1.

    Genome annotation databases

    EnsemblBacteriaiACA99632; ACA99632; SYNPCC7002_A1642.
    GeneIDi6055880.
    KEGGisyp:SYNPCC7002_A1642.
    PATRICi23817902. VBISynSp37135_1894.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000951 Genomic DNA. Translation: ACA99632.1 .
    RefSeqi WP_012307255.1. NC_010475.1.
    YP_001734888.1. NC_010475.1.

    3D structure databases

    ProteinModelPortali B1XP39.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 32049.SYNPCC7002_A1642.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACA99632 ; ACA99632 ; SYNPCC7002_A1642 .
    GeneIDi 6055880.
    KEGGi syp:SYNPCC7002_A1642.
    PATRICi 23817902. VBISynSp37135_1894.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci SSP32049:GKF7-1643-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 Synechococcus sp. PCC 7002."
      Li T., Zhao J., Zhao C., Liu Z., Zhao F., Marquardt J., Nomura C.T., Persson S., Detter J.C., Richardson P.M., Lanz C., Schuster S.C., Wang J., Li S., Huang X., Cai T., Yu Z., Luo J., Zhao J., Bryant D.A.
      Submitted (FEB-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 27264 / PCC 7002 / PR-6.

    Entry informationi

    Entry nameiDAPF_SYNP2
    AccessioniPrimary (citable) accession number: B1XP39
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: May 20, 2008
    Last modified: October 1, 2014
    This is version 47 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