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Q1QHJ3

- DAPF_NITHX

UniProt

Q1QHJ3 - DAPF_NITHX

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Nitrobacter hamburgensis (strain X14 / DSM 10229)
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 (16 May 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 sitei17 – 171SubstrateUniRule annotation
    Binding sitei49 – 491SubstrateUniRule annotation
    Binding sitei69 – 691SubstrateUniRule annotation
    Active sitei78 – 781Proton donor/acceptorUniRule annotation
    Binding sitei166 – 1661SubstrateUniRule annotation
    Sitei168 – 1681Important for catalytic activityUniRule annotation
    Binding sitei199 – 1991SubstrateUniRule annotation
    Sitei217 – 2171Important for catalytic activityUniRule annotation
    Active sitei226 – 2261Proton 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

    BioCyciNHAM323097:GHP7-3631-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:Nham_3575
    OrganismiNitrobacter hamburgensis (strain X14 / DSM 10229)
    Taxonomic identifieri323097 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeNitrobacter
    ProteomesiUP000001953: 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 – 290290Diaminopimelate epimerasePRO_1000011917Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi78 ↔ 226

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi323097.Nham_3575.

    Structurei

    3D structure databases

    ProteinModelPortaliQ1QHJ3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni14 – 152Substrate bindingUniRule annotation
    Regioni78 – 803Substrate bindingUniRule annotation
    Regioni217 – 2182Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiDGVWMTG.
    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.

    Q1QHJ3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGTLANHAFS KMNGIGNEIV VVDLRDRPAA VTAEEARAVA SPGGVPYDQL    50
    MVLQPPRLPG TEAFVSIYNN DGSEANACGN GMRCVARQVF EATGKAALTF 100
    ETRAGLLSCW QGPAPGLYTV DMGPPKFGWR DIPLAEEFRD TRYIELQVGP 150
    IDAPVLHSPS VVSMGNPHAI FWVDDVNAHD LERFGPLLEN HPIFPERANI 200
    TLAHIAGRDR IVMRTWERGA GMTKACGSAA CATAVAAARL KRADRVVDMV 250
    LPGGGLTIEW RERDDHVLMT GPAVFEYAGT FDPALFASVA 290
    Length:290
    Mass (Da):31,239
    Last modified:May 16, 2006 - v1
    Checksum:i239D0F0A9204E114
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000319 Genomic DNA. Translation: ABE64304.1.
    RefSeqiYP_578764.1. NC_007964.1.

    Genome annotation databases

    EnsemblBacteriaiABE64304; ABE64304; Nham_3575.
    GeneIDi4030903.
    KEGGinha:Nham_3575.
    PATRICi22695205. VBINitHam61822_4597.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000319 Genomic DNA. Translation: ABE64304.1 .
    RefSeqi YP_578764.1. NC_007964.1.

    3D structure databases

    ProteinModelPortali Q1QHJ3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 323097.Nham_3575.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABE64304 ; ABE64304 ; Nham_3575 .
    GeneIDi 4030903.
    KEGGi nha:Nham_3575.
    PATRICi 22695205. VBINitHam61822_4597.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci NHAM323097:GHP7-3631-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: X14 / DSM 10229.

    Entry informationi

    Entry nameiDAPF_NITHX
    AccessioniPrimary (citable) accession number: Q1QHJ3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: May 16, 2006
    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