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A3DK16

- DAPF_CLOTH

UniProt

A3DK16 - DAPF_CLOTH

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Clostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
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 (20 Mar 2007)
      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 sitei62 – 621SubstrateUniRule annotation
    Active sitei71 – 711Proton 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

    BioCyciCTHE203119:GIW8-3218-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:Cthe_3100
    OrganismiClostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
    Taxonomic identifieri203119 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesRuminococcaceaeRuminiclostridium
    ProteomesiUP000002145: 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 – 280280Diaminopimelate epimerasePRO_1000124407Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi71 ↔ 220

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi203119.Cthe_3100.

    Structurei

    3D structure databases

    ProteinModelPortaliA3DK16.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni8 – 92Substrate bindingUniRule annotation
    Regioni71 – 733Substrate 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.
    OMAiKMRIFNN.
    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.

    A3DK16-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRFTKMHGLG NDYIYVNCFE ETVENPSEVA KKVSDRHFGI GSDGLVLIMP    50
    SERADFKMRM FNSDGSEAEM CGNAIRCVGK YVFDRGMTNK NVIRVETLAG 100
    IKVLELTVQD GKAKLVKVDM GEPILKPENI PVNSDKEIFR TEPVEIDGKE 150
    FKVTCVSMGN PHAVSYVKNV DIFPLEKIGP KMEHHPLFPK RINAEFVEVI 200
    DRTTLKMRVW ERGAGETLAC GTGACAVLVA SVLNGVSERK ATVKLLGGDL 250
    IIEWNENNNH VYMTGPAVKV FEGEVDLNEL 280
    Length:280
    Mass (Da):31,124
    Last modified:March 20, 2007 - v1
    Checksum:iCE9C58BBF38D6A3C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000568 Genomic DNA. Translation: ABN54295.1.
    RefSeqiYP_001039488.1. NC_009012.1.

    Genome annotation databases

    EnsemblBacteriaiABN54295; ABN54295; Cthe_3100.
    GeneIDi4809726.
    KEGGicth:Cthe_3100.
    PATRICi19520340. VBICloThe47081_3312.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000568 Genomic DNA. Translation: ABN54295.1 .
    RefSeqi YP_001039488.1. NC_009012.1.

    3D structure databases

    ProteinModelPortali A3DK16.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 203119.Cthe_3100.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABN54295 ; ABN54295 ; Cthe_3100 .
    GeneIDi 4809726.
    KEGGi cth:Cthe_3100.
    PATRICi 19520340. VBICloThe47081_3312.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci CTHE203119:GIW8-3218-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: ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372.

    Entry informationi

    Entry nameiDAPF_CLOTH
    AccessioniPrimary (citable) accession number: A3DK16
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: March 20, 2007
    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