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B4RCE2

- DAPF_PHEZH

UniProt

B4RCE2 - DAPF_PHEZH

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Phenylobacterium zucineum (strain HLK1)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 42 (01 Oct 2014)
      Sequence version 1 (23 Sep 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 sitei17 – 171SubstrateUniRule annotation
    Binding sitei50 – 501SubstrateUniRule annotation
    Binding sitei68 – 681SubstrateUniRule annotation
    Active sitei77 – 771Proton 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

    BioCyciPZUC450851:GHUG-129-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:PHZ_c0127
    OrganismiPhenylobacterium zucineum (strain HLK1)
    Taxonomic identifieri450851 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaCaulobacteralesCaulobacteraceaePhenylobacterium
    ProteomesiUP000001868: 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 – 277277Diaminopimelate epimerasePRO_1000099255Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi77 ↔ 222

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi450851.PHZ_c0127.

    Structurei

    3D structure databases

    ProteinModelPortaliB4RCE2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni14 – 152Substrate bindingUniRule annotation
    Regioni77 – 793Substrate 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.

    B4RCE2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSAAMGRPFL KMNGLGNDFV VVETRSAPFE PTAAQVRAIA DRATGIGCDQ    50
    LIAVDPAEGA DAHVRFWNAD GEEVGACGNG TRCVGWLLMQ SSGKDEAVIE 100
    TRAGRLVATR AGERLVSVDM GPPRLEWNEI PLAEPHDTRA LDVVLYHHAD 150
    LMAPPGCVSM GNPHVVFFVP DAEQAPAAEA GPAIEGHPLF PEHVNVGFAQ 200
    VKAPDRIRLR VWERGAGLTK ACGTGACAAM VAASRRGLIG RHATMELDGG 250
    ELFVEWRADG HVIMTGPAAV DFQGELP 277
    Length:277
    Mass (Da):29,372
    Last modified:September 23, 2008 - v1
    Checksum:i1EF73A28BBD0AE80
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000747 Genomic DNA. Translation: ACG76541.1.
    RefSeqiWP_012520689.1. NC_011144.1.
    YP_002128970.1. NC_011144.1.

    Genome annotation databases

    EnsemblBacteriaiACG76541; ACG76541; PHZ_c0127.
    GeneIDi6789615.
    KEGGipzu:PHZ_c0127.
    PATRICi22922770. VBIPheZuc44517_0482.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000747 Genomic DNA. Translation: ACG76541.1 .
    RefSeqi WP_012520689.1. NC_011144.1.
    YP_002128970.1. NC_011144.1.

    3D structure databases

    ProteinModelPortali B4RCE2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 450851.PHZ_c0127.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACG76541 ; ACG76541 ; PHZ_c0127 .
    GeneIDi 6789615.
    KEGGi pzu:PHZ_c0127.
    PATRICi 22922770. VBIPheZuc44517_0482.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci PZUC450851:GHUG-129-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 genome of Phenylobacterium zucineum - a novel facultative intracellular bacterium isolated from human erythroleukemia cell line K562."
      Luo Y., Xu X., Ding Z., Liu Z., Zhang B., Yan Z., Sun J., Hu S., Hu X.
      BMC Genomics 9:386-386(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: HLK1.

    Entry informationi

    Entry nameiDAPF_PHEZH
    AccessioniPrimary (citable) accession number: B4RCE2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: September 23, 2008
    Last modified: October 1, 2014
    This is version 42 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