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Q1GAR4

- DEF_LACDA

UniProt

Q1GAR4 - DEF_LACDA

Protein

Peptide deformylase

Gene

def

Organism
Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 56 (01 Oct 2014)
      Sequence version 1 (27 Jun 2006)
      Previous versions | rss
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    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 bindingi111 – 1111IronUniRule annotation
    Metal bindingi154 – 1541IronUniRule annotation
    Active sitei155 – 1551UniRule annotation
    Metal bindingi158 – 1581IronUniRule 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

    Enzyme and pathway databases

    BioCyciLDEL390333:GIXG-758-MONOMER.

    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:Ldb0762
    OrganismiLactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081)
    Taxonomic identifieri390333 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
    ProteomesiUP000001259: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 184184Peptide deformylasePRO_0000301044Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi390333.Ldb0762.

    Structurei

    3D structure databases

    ProteinModelPortaliQ1GAR4.
    SMRiQ1GAR4. Positions 1-183.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243507.
    KOiK01462.
    OMAiSQDPKIA.
    OrthoDBiEOG6PZXGQ.

    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.

    Q1GAR4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MILMKDIVRD GDPVLRQVAQ KLTFPLSDHY RKLADDMMEY LVNSQDPKIA    50
    AKHQLRAGVG LAAPQVGEGV SMAALLVPDD KGEIIFKEVY VNPEIISESV 100
    RKTCLSEGEG CLSVDKVIDG YVPRPNKVTV HYWTVDGEEK TIRLKGYPAI 150
    VSGHEIDHLN GHLFYDRINK ENPFALDEDT IVIY 184
    Length:184
    Mass (Da):20,621
    Last modified:June 27, 2006 - v1
    Checksum:iD2DE9DBFA0ABE137
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CR954253 Genomic DNA. Translation: CAI97589.1.
    RefSeqiWP_011543785.1. NC_008054.1.
    YP_618826.1. NC_008054.1.

    Genome annotation databases

    EnsemblBacteriaiCAI97589; CAI97589; Ldb0762.
    GeneIDi4084557.
    KEGGildb:Ldb0762.
    PATRICi22217131. VBILacDel123523_0709.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CR954253 Genomic DNA. Translation: CAI97589.1 .
    RefSeqi WP_011543785.1. NC_008054.1.
    YP_618826.1. NC_008054.1.

    3D structure databases

    ProteinModelPortali Q1GAR4.
    SMRi Q1GAR4. Positions 1-183.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 390333.Ldb0762.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAI97589 ; CAI97589 ; Ldb0762 .
    GeneIDi 4084557.
    KEGGi ldb:Ldb0762.
    PATRICi 22217131. VBILacDel123523_0709.

    Phylogenomic databases

    eggNOGi COG0242.
    HOGENOMi HOG000243507.
    KOi K01462.
    OMAi SQDPKIA.
    OrthoDBi EOG6PZXGQ.

    Enzyme and pathway databases

    BioCyci LDEL390333:GIXG-758-MONOMER.

    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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 11842 / DSM 20081.

    Entry informationi

    Entry nameiDEF_LACDA
    AccessioniPrimary (citable) accession number: Q1GAR4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 11, 2007
    Last sequence update: June 27, 2006
    Last modified: October 1, 2014
    This is version 56 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3