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Q7VKK9

- DEF_HAEDU

UniProt

Q7VKK9 - DEF_HAEDU

Protein

Peptide deformylase

Gene

def

Organism
Haemophilus ducreyi (strain 35000HP / ATCC 700724)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 65 (01 Oct 2014)
      Sequence version 1 (01 Oct 2003)
      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 bindingi91 – 911IronUniRule annotation
    Metal bindingi133 – 1331IronUniRule annotation
    Active sitei134 – 1341UniRule annotation
    Metal bindingi137 – 1371IronUniRule 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

    BioCyciHDUC233412:GH5F-1702-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:HD_1889
    OrganismiHaemophilus ducreyi (strain 35000HP / ATCC 700724)
    Taxonomic identifieri233412 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPasteurellalesPasteurellaceaeHaemophilus
    ProteomesiUP000001022: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 171171Peptide deformylasePRO_0000082787Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi233412.HD1889.

    Structurei

    3D structure databases

    ProteinModelPortaliQ7VKK9.
    SMRiQ7VKK9. Positions 2-168.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    KOiK01462.
    OMAiELLAICI.
    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.

    Q7VKK9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSVLQVVLYP DDRLTKVCEP VTQVDDELNQ FIDDMFDTMY QEGGIGLAAS    50
    QVGVLKRVIT IDIEGDKTNQ VVLINPEILE SCGETGIEEG CLSIPGYRAL 100
    VPRKEKITVK ALNRQGEEVI YHADDLFAIC IQHEIDHLNG IVFVDHISNL 150
    KRQRIKDKMQ KLKKQLYRSK A 171
    Length:171
    Mass (Da):19,369
    Last modified:October 1, 2003 - v1
    Checksum:i344DCD9AB278CC12
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE017143 Genomic DNA. Translation: AAP96618.1.
    RefSeqiNP_874229.1. NC_002940.2.

    Genome annotation databases

    EnsemblBacteriaiAAP96618; AAP96618; HD_1889.
    GeneIDi1491726.
    KEGGihdu:HD1889.
    PATRICi20179926. VBIHaeDuc133973_1583.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE017143 Genomic DNA. Translation: AAP96618.1 .
    RefSeqi NP_874229.1. NC_002940.2.

    3D structure databases

    ProteinModelPortali Q7VKK9.
    SMRi Q7VKK9. Positions 2-168.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 233412.HD1889.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAP96618 ; AAP96618 ; HD_1889 .
    GeneIDi 1491726.
    KEGGi hdu:HD1889.
    PATRICi 20179926. VBIHaeDuc133973_1583.

    Phylogenomic databases

    eggNOGi COG0242.
    KOi K01462.
    OMAi ELLAICI.
    OrthoDBi EOG664CMF.

    Enzyme and pathway databases

    BioCyci HDUC233412:GH5F-1702-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. "The complete genome sequence of Haemophilus ducreyi."
      Munson R.S. Jr., Ray W.C., Mahairas G., Sabo P., Mungur R., Johnson L., Nguyen D., Wang J., Forst C., Hood L.
      Submitted (JUN-2003) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 35000HP / ATCC 700724.

    Entry informationi

    Entry nameiDEF_HAEDU
    AccessioniPrimary (citable) accession number: Q7VKK9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 2003
    Last sequence update: October 1, 2003
    Last modified: October 1, 2014
    This is version 65 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