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B9EB04

- DEF_MACCJ

UniProt

B9EB04 - DEF_MACCJ

Protein

Peptide deformylase

Gene

def

Organism
Macrococcus caseolyticus (strain JCSC5402)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 41 (01 Oct 2014)
      Sequence version 1 (24 Mar 2009)
      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

    BioCyciMCAS458233:GI03-721-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:MCCL_0708
    OrganismiMacrococcus caseolyticus (strain JCSC5402)
    Taxonomic identifieri458233 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesMacrococcus
    ProteomesiUP000001383: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 184184Peptide deformylasePRO_1000200738Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi458233.MCCL_0708.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243507.
    KOiK01462.
    OMAiHIDKENP.
    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.

    B9EB04-1 [UniParc]FASTAAdd to Basket

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    MLTMKDIIRD GHPTLRAKAE EVPLPLSTED RQLIDDMLEF LKMSQDEEQS    50
    RKYQLRSGVG IAAPQLNHKK RMLVIHFYDE KKGDYVTHQL INPKIISHSV 100
    EKSYLPTGEG CLSVDEAVPG IVHRYARITV KAYTPDGEEV KLRLKDFSAI 150
    VAQHEIDHLN GVMFYDHIDK ADPMKVQKDA IAVE 184
    Length:184
    Mass (Da):20,992
    Last modified:March 24, 2009 - v1
    Checksum:i40B4E4134E13C131
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009484 Genomic DNA. Translation: BAH17415.1.
    RefSeqiWP_012656616.1. NC_011999.1.
    YP_002560111.1. NC_011999.1.

    Genome annotation databases

    EnsemblBacteriaiBAH17415; BAH17415; MCCL_0708.
    GeneIDi7389894.
    KEGGimcl:MCCL_0708.
    PATRICi22423719. VBIMacCas48391_0802.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP009484 Genomic DNA. Translation: BAH17415.1 .
    RefSeqi WP_012656616.1. NC_011999.1.
    YP_002560111.1. NC_011999.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 458233.MCCL_0708.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAH17415 ; BAH17415 ; MCCL_0708 .
    GeneIDi 7389894.
    KEGGi mcl:MCCL_0708.
    PATRICi 22423719. VBIMacCas48391_0802.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci MCAS458233:GI03-721-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. "Complete genome sequence of Macrococcus caseolyticus strain JCSCS5402, reflecting the ancestral genome of the human-pathogenic staphylococci."
      Baba T., Kuwahara-Arai K., Uchiyama I., Takeuchi F., Ito T., Hiramatsu K.
      J. Bacteriol. 191:1180-1190(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: JCSC5402.

    Entry informationi

    Entry nameiDEF_MACCJ
    AccessioniPrimary (citable) accession number: B9EB04
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: March 24, 2009
    Last modified: October 1, 2014
    This is version 41 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