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Q64VP5

- DEF_BACFR

UniProt

Q64VP5 - DEF_BACFR

Protein

Peptide deformylase

Gene

def

Organism
Bacteroides fragilis (strain YCH46)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 62 (01 Oct 2014)
      Sequence version 1 (25 Oct 2004)
      Previous versions | rss
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    • Comment

    Functioni

    Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions.UniRule annotation

    Catalytic activityi

    Formyl-L-methionyl peptide + H2O = formate + methionyl peptide.UniRule annotation

    Cofactori

    Binds 1 Fe2+ ion.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi98 – 981IronUniRule annotation
    Metal bindingi140 – 1401IronUniRule annotation
    Active sitei141 – 1411UniRule annotation
    Metal bindingi144 – 1441IronUniRule annotation

    GO - Molecular functioni

    1. iron ion binding Source: InterPro
    2. peptide deformylase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. translation Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Biological processi

    Protein biosynthesis

    Keywords - Ligandi

    Iron, Metal-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Peptide deformylaseUniRule annotation (EC:3.5.1.88UniRule annotation)
    Short name:
    PDFUniRule annotation
    Alternative name(s):
    Polypeptide deformylaseUniRule annotation
    Gene namesi
    Name:defUniRule annotation
    Ordered Locus Names:BF1684
    OrganismiBacteroides fragilis (strain YCH46)
    Taxonomic identifieri295405 [NCBI]
    Taxonomic lineageiBacteriaBacteroidetesBacteroidiaBacteroidalesBacteroidaceaeBacteroides
    ProteomesiUP000002197: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 184184Peptide deformylasePRO_0000301003Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi295405.BF1684.

    Structurei

    3D structure databases

    ProteinModelPortaliQ64VP5.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiFPARIVM.
    OrthoDBiEOG664CMF.

    Family and domain databases

    Gene3Di3.90.45.10. 1 hit.
    HAMAPiMF_00163. Pep_deformylase.
    InterProiIPR000181. Fmet_deformylase.
    IPR023635. Peptide_deformylase.
    [Graphical view]
    PANTHERiPTHR10458. PTHR10458. 1 hit.
    PfamiPF01327. Pep_deformylase. 1 hit.
    [Graphical view]
    PIRSFiPIRSF004749. Pep_def. 1 hit.
    PRINTSiPR01576. PDEFORMYLASE.
    SUPFAMiSSF56420. SSF56420. 1 hit.
    TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q64VP5-1 [UniParc]FASTAAdd to Basket

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    MILPIYVYGQ PVLRQVAEDI TVDYPNLKEL IENMFETMDH ADGVGLAAPQ    50
    IGLPIRVVVI NLDVLSEDYP EYKDFRKAYI NAHIDVVEGE EVSMEEGCLS 100
    LPGIHESVKR GSKIHVRYMD ENFVEHNEVV EGFLARVMQH EFDHLDGKMF 150
    IDHISPLRKQ MIKGKLNTML KGKARSSYKM KQVK 184
    Length:184
    Mass (Da):21,101
    Last modified:October 25, 2004 - v1
    Checksum:i1191336370789D37
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006841 Genomic DNA. Translation: BAD48431.1.
    RefSeqiYP_098965.1. NC_006347.1.

    Genome annotation databases

    EnsemblBacteriaiBAD48431; BAD48431; BF1684.
    GeneIDi3081306.
    KEGGibfr:BF1684.
    PATRICi21049037. VBIBacFra17906_1636.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006841 Genomic DNA. Translation: BAD48431.1 .
    RefSeqi YP_098965.1. NC_006347.1.

    3D structure databases

    ProteinModelPortali Q64VP5.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 295405.BF1684.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD48431 ; BAD48431 ; BF1684 .
    GeneIDi 3081306.
    KEGGi bfr:BF1684.
    PATRICi 21049037. VBIBacFra17906_1636.

    Phylogenomic databases

    eggNOGi COG0242.
    HOGENOMi HOG000243509.
    KOi K01462.
    OMAi FPARIVM.
    OrthoDBi EOG664CMF.

    Family and domain databases

    Gene3Di 3.90.45.10. 1 hit.
    HAMAPi MF_00163. Pep_deformylase.
    InterProi IPR000181. Fmet_deformylase.
    IPR023635. Peptide_deformylase.
    [Graphical view ]
    PANTHERi PTHR10458. PTHR10458. 1 hit.
    Pfami PF01327. Pep_deformylase. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF004749. Pep_def. 1 hit.
    PRINTSi PR01576. PDEFORMYLASE.
    SUPFAMi SSF56420. SSF56420. 1 hit.
    TIGRFAMsi TIGR00079. pept_deformyl. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Genomic analysis of Bacteroides fragilis reveals extensive DNA inversions regulating cell surface adaptation."
      Kuwahara T., Yamashita A., Hirakawa H., Nakayama H., Toh H., Okada N., Kuhara S., Hattori M., Hayashi T., Ohnishi Y.
      Proc. Natl. Acad. Sci. U.S.A. 101:14919-14924(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: YCH46.

    Entry informationi

    Entry nameiDEF_BACFR
    AccessioniPrimary (citable) accession number: Q64VP5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 11, 2007
    Last sequence update: October 25, 2004
    Last modified: October 1, 2014
    This is version 62 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3