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A0QVY0

- DAPF_MYCS2

UniProt

A0QVY0 - DAPF_MYCS2

Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 58 (01 Oct 2014)
      Sequence version 1 (09 Jan 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 sitei78 – 781SubstrateUniRule annotation
    Active sitei87 – 871Proton donor/acceptorUniRule annotation
    Binding sitei166 – 1661SubstrateUniRule annotation
    Sitei168 – 1681Important for catalytic activityUniRule annotation
    Binding sitei200 – 2001SubstrateUniRule annotation
    Sitei218 – 2181Important for catalytic activityUniRule annotation
    Active sitei227 – 2271Proton 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

    BioCyciMSME246196:GJ4Y-2735-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:MSMEG_2735, MSMEI_2668
    OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
    Taxonomic identifieri246196 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeMycobacteriaceaeMycobacterium
    ProteomesiUP000000757: Chromosome, UP000006158: 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 – 291291Diaminopimelate epimerasePRO_1000011909Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi87 ↔ 227

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Protein-protein interaction databases

    STRINGi246196.MSMEG_2735.

    Structurei

    3D structure databases

    ProteinModelPortaliA0QVY0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni87 – 893Substrate bindingUniRule annotation
    Regioni218 – 2192Substrate bindingUniRule annotation
    Regioni228 – 2292Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the diaminopimelate epimerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0253.
    HOGENOMiHOG000220467.
    KOiK01778.
    OMAiITIEMGT.
    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.

    A0QVY0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIFAKGHGTE NDFVVLPDLD AALSLTPSAV AALCDRRRGL GADGVLRVTR    50
    AGAARAAGVF DRLPDGVSAG DWYMDYRNAD GSIAQMCGNG VRVFAHYLRA 100
    SGLESADEFV VGSLAGPRPV VLHGFDPARA TTAEVTVEMG KANQFGAGSA 150
    VVGGRSFDGL AVDVGNPHLA CVGITADDLA ALDVAAPVSF DPALFPDGVN 200
    VEVLTASVDG AVSMRVHERG VGETRSCGTG TVAATVAALA HDGADTGTLR 250
    VRIPGGEVTV TVTESTSYLR GPSVLVARGE LDPHWWHAVA G 291
    Length:291
    Mass (Da):29,791
    Last modified:January 9, 2007 - v1
    Checksum:iBB63840A5B690C9D
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000480 Genomic DNA. Translation: ABK73529.1.
    CP001663 Genomic DNA. Translation: AFP39136.1.
    RefSeqiWP_011728551.1. NC_018289.1.
    YP_006567431.1. NC_018289.1.
    YP_887068.1. NC_008596.1.

    Genome annotation databases

    EnsemblBacteriaiABK73529; ABK73529; MSMEG_2735.
    AFP39136; AFP39136; MSMEI_2668.
    GeneIDi4533230.
    KEGGimsg:MSMEI_2668.
    msm:MSMEG_2735.
    PATRICi18077902. VBIMycSme59918_2703.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000480 Genomic DNA. Translation: ABK73529.1 .
    CP001663 Genomic DNA. Translation: AFP39136.1 .
    RefSeqi WP_011728551.1. NC_018289.1.
    YP_006567431.1. NC_018289.1.
    YP_887068.1. NC_008596.1.

    3D structure databases

    ProteinModelPortali A0QVY0.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 246196.MSMEG_2735.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABK73529 ; ABK73529 ; MSMEG_2735 .
    AFP39136 ; AFP39136 ; MSMEI_2668 .
    GeneIDi 4533230.
    KEGGi msg:MSMEI_2668.
    msm:MSMEG_2735.
    PATRICi 18077902. VBIMycSme59918_2703.

    Phylogenomic databases

    eggNOGi COG0253.
    HOGENOMi HOG000220467.
    KOi K01778.
    OMAi ITIEMGT.
    OrthoDBi EOG6ND0M5.

    Enzyme and pathway databases

    UniPathwayi UPA00034 ; UER00025 .
    BioCyci MSME246196:GJ4Y-2735-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. Fleischmann R.D., Dodson R.J., Haft D.H., Merkel J.S., Nelson W.C., Fraser C.M.
      Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 700084 / mc(2)155.
    2. "Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?"
      Deshayes C., Perrodou E., Gallien S., Euphrasie D., Schaeffer C., Van-Dorsselaer A., Poch O., Lecompte O., Reyrat J.-M.
      Genome Biol. 8:R20.1-R20.9(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 700084 / mc(2)155.
    3. "Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol."
      Gallien S., Perrodou E., Carapito C., Deshayes C., Reyrat J.-M., Van Dorsselaer A., Poch O., Schaeffer C., Lecompte O.
      Genome Res. 19:128-135(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 700084 / mc(2)155.

    Entry informationi

    Entry nameiDAPF_MYCS2
    AccessioniPrimary (citable) accession number: A0QVY0
    Secondary accession number(s): I7G799
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: January 9, 2007
    Last modified: October 1, 2014
    This is version 58 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