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B2UTR2

- DAPF_HELPS

UniProt

B2UTR2 - DAPF_HELPS

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Helicobacter pylori (strain Shi470)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 45 (01 Oct 2014)
      Sequence version 1 (01 Jul 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 sitei11 – 111SubstrateUniRule annotation
    Binding sitei42 – 421SubstrateUniRule annotation
    Binding sitei60 – 601SubstrateUniRule annotation
    Active sitei69 – 691Proton donor/acceptorUniRule annotation
    Sitei152 – 1521Important for catalytic activityUniRule annotation
    Binding sitei181 – 1811SubstrateUniRule annotation
    Sitei199 – 1991Important for catalytic activityUniRule annotation
    Active sitei209 – 2091Proton 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

    BioCyciHPYL512562:GHHZ-804-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:HPSH_04045
    OrganismiHelicobacter pylori (strain Shi470)
    Taxonomic identifieri512562 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
    ProteomesiUP000008831: 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 – 273273Diaminopimelate epimerasePRO_1000099241Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi69 ↔ 209

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi512562.HPSH_04045.

    Structurei

    3D structure databases

    ProteinModelPortaliB2UTR2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni69 – 713Substrate bindingUniRule annotation
    Regioni199 – 2002Substrate bindingUniRule annotation
    Regioni210 – 2112Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220466.
    KOiK01778.
    OMAiVFDRYFL.
    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.

    B2UTR2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MVFYKYSGSG NDFLIVQSFK KKDFSNLAKQ VCHRHEGFGA DGLVVVLPSK    50
    DYDYEWDFYN SDGSKAGMCG NASRCVGLFA YQHAIASKNH VFLAGKREIS 100
    ICIEEPNIIE SNLGNYKILD TIPALRCEKF FTNDSVLENI PTFYLIDTGV 150
    PHLVGFVKNK EWLNSLNTLE LRALRHAFNA NINIAFIENK ETIFLQTYER 200
    GVEDFTLACG TGMAAVFIAA RIFYNTPEKA ALIPKSSESL ELSLKNDEIF 250
    YKGAVRYIGM SVLGMSVFEN GCF 273
    Length:273
    Mass (Da):30,625
    Last modified:July 1, 2008 - v1
    Checksum:iB8F431A3C98A6A3E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001072 Genomic DNA. Translation: ACD48244.1.
    RefSeqiWP_000232457.1. NC_010698.2.
    YP_001910274.1. NC_010698.2.

    Genome annotation databases

    EnsemblBacteriaiACD48244; ACD48244; HPSH_04045.
    GeneIDi6297048.
    KEGGihps:HPSH_04045.
    PATRICi20612973. VBIHelPyl23559_0798.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001072 Genomic DNA. Translation: ACD48244.1 .
    RefSeqi WP_000232457.1. NC_010698.2.
    YP_001910274.1. NC_010698.2.

    3D structure databases

    ProteinModelPortali B2UTR2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 512562.HPSH_04045.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACD48244 ; ACD48244 ; HPSH_04045 .
    GeneIDi 6297048.
    KEGGi hps:HPSH_04045.
    PATRICi 20612973. VBIHelPyl23559_0798.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci HPYL512562:GHHZ-804-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. "Genome sequence of Helicobacter pylori from the remote Amazon: traces of Asian ancestry of the first Americans."
      Kersulyte D., Kalia A., Gilman R.H., Berg D.E.
      Submitted (MAY-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Shi470.

    Entry informationi

    Entry nameiDAPF_HELPS
    AccessioniPrimary (citable) accession number: B2UTR2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: July 1, 2008
    Last modified: October 1, 2014
    This is version 45 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

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3