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A5D193

- DAPF_PELTS

UniProt

A5D193 - DAPF_PELTS

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Pelotomaculum thermopropionicum (strain DSM 13744 / JCM 10971 / SI)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 57 (01 Oct 2014)
      Sequence version 1 (12 Jun 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 sitei46 – 461SubstrateUniRule annotation
    Binding sitei64 – 641SubstrateUniRule annotation
    Active sitei73 – 731Proton donor/acceptorUniRule annotation
    Binding sitei162 – 1621SubstrateUniRule annotation
    Sitei164 – 1641Important for catalytic activityUniRule annotation
    Binding sitei195 – 1951SubstrateUniRule annotation
    Sitei213 – 2131Important for catalytic activityUniRule annotation
    Active sitei222 – 2221Proton 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

    BioCyciPTHE370438:GCGQ-1849-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:PTH_1800
    OrganismiPelotomaculum thermopropionicum (strain DSM 13744 / JCM 10971 / SI)
    Taxonomic identifieri370438 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesPeptococcaceaePelotomaculum
    ProteomesiUP000006556: 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_1000099254Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi73 ↔ 222

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi370438.PTH_1800.

    Structurei

    3D structure databases

    ProteinModelPortaliA5D193.
    SMRiA5D193. Positions 1-279.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni8 – 92Substrate bindingUniRule annotation
    Regioni73 – 753Substrate bindingUniRule annotation
    Regioni213 – 2142Substrate bindingUniRule annotation
    Regioni223 – 2242Substrate 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.

    A5D193-1 [UniParc]FASTAAdd to Basket

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    MHFTKAHGLG NDFILVDCFK EKVNPEDFPG LAVKMCDRHF GVGADGLVLL    50
    LPSPSADVSM RIFNPDGSEA EMCGNAIRCV AKYLYERGMV KADRIRVETL 100
    AGVMIPELLV EEGRVRLVRV DMGEPRLERS EIPMEGPPGR VLGEPLETGG 150
    AVYRITAVSM GNPHCVIFVQ DLDAVPFQTA GPLIETHPAF PRRTNVEFIQ 200
    VLTPEEIKMR VWERGAGETM ACGTGACAAV VAGVLNGYTG RRVTVHLKAG 250
    DLFIEWPEGK HVYMSGPAEE VFSGEYPYRT 280
    Length:280
    Mass (Da):30,690
    Last modified:June 12, 2007 - v1
    Checksum:i3C5F8776A44838B3
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009389 Genomic DNA. Translation: BAF59981.1.
    RefSeqiWP_012032958.1. NC_009454.1.
    YP_001212350.1. NC_009454.1.

    Genome annotation databases

    EnsemblBacteriaiBAF59981; BAF59981; PTH_1800.
    GeneIDi5139058.
    KEGGipth:PTH_1800.
    PATRICi22910861. VBIPelThe8413_2022.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009389 Genomic DNA. Translation: BAF59981.1 .
    RefSeqi WP_012032958.1. NC_009454.1.
    YP_001212350.1. NC_009454.1.

    3D structure databases

    ProteinModelPortali A5D193.
    SMRi A5D193. Positions 1-279.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 370438.PTH_1800.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAF59981 ; BAF59981 ; PTH_1800 .
    GeneIDi 5139058.
    KEGGi pth:PTH_1800.
    PATRICi 22910861. VBIPelThe8413_2022.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci PTHE370438:GCGQ-1849-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. "The genome of Pelotomaculum thermopropionicum reveals niche-associated evolution in anaerobic microbiota."
      Kosaka T., Kato S., Shimoyama T., Ishii S., Abe T., Watanabe K.
      Genome Res. 18:442-448(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DSM 13744 / JCM 10971 / SI.

    Entry informationi

    Entry nameiDAPF_PELTS
    AccessioniPrimary (citable) accession number: A5D193
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: June 12, 2007
    Last modified: October 1, 2014
    This is version 57 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