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Q672W7

- Q672W7_HELPX

UniProt

Q672W7 - Q672W7_HELPX

Protein

Peptide deformylase

Gene

def

Organism
Helicobacter pylori (Campylobacter pylori)
Status
Unreviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli
  1. 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 annotationSAAS annotation

    Cofactori

    Binds 1 Fe2+ ion.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi96 – 961CobaltImported
    Metal bindingi96 – 961IronUniRule annotation
    Metal bindingi138 – 1381Cobalt; via tele nitrogenImported
    Metal bindingi138 – 1381IronUniRule annotation
    Active sitei139 – 1391UniRule annotation
    Metal bindingi142 – 1421Cobalt; via tele nitrogenImported
    Metal bindingi142 – 1421IronUniRule 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

    HydrolaseUniRule annotationSAAS annotation

    Keywords - Biological processi

    Protein biosynthesisUniRule annotationSAAS annotation

    Keywords - Ligandi

    IronUniRule annotation, Metal-bindingUniRule annotationSAAS annotation

    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 annotationImported
    OrganismiHelicobacter pylori (Campylobacter pylori)Imported
    Taxonomic identifieri210 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2EW5X-ray2.20A2-174[»]
    2EW6X-ray2.20A2-174[»]
    2EW7X-ray2.20A2-174[»]
    4E9AX-ray1.66A2-174[»]
    4E9BX-ray1.70A2-164[»]
    ProteinModelPortaliQ672W7.
    SMRiQ672W7. Positions 2-167.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ672W7.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    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.

    Q672W7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MALLEIIHYP SKILRTISKE VVSFDAKLHQ QLDDMYETMI ASEGIGLAAI    50
    QVGLPLRMLI INLPQEDGVQ HKEDCLEIIN PKFIETGGSM MYKEGCLSVP 100
    GFYEEVERFE KVKIEYQNRF AEVKVLEASE LLAVAIQHEI DHLNGVLFVD 150
    KLSILKRKKF EKELKELQKK QKHK 174
    Length:174
    Mass (Da):20,038
    Last modified:October 11, 2004 - v1
    Checksum:iA10BEAEBE6CC4C85
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY559449 Genomic DNA. Translation: AAT51863.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY559449 Genomic DNA. Translation: AAT51863.1 .

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2EW5 X-ray 2.20 A 2-174 [» ]
    2EW6 X-ray 2.20 A 2-174 [» ]
    2EW7 X-ray 2.20 A 2-174 [» ]
    4E9A X-ray 1.66 A 2-174 [» ]
    4E9B X-ray 1.70 A 2-164 [» ]
    ProteinModelPortali Q672W7.
    SMRi Q672W7. Positions 2-167.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Miscellaneous databases

    EvolutionaryTracei Q672W7.

    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. "Molecular cloning and characterization of a new peptide deformylase from human pathogenic bacterium Helicobacter pylori."
      Han C., Wang Q., Dong L., Sun H., Peng S., Chen J., Yang Y., Yue J., Shen X., Jiang H.
      Biochem. Biophys. Res. Commun. 319:1292-1298(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: SS1Imported.
    2. "Peptide deformylase is a potential target for anti-Helicobacter pylori drugs: reverse docking, enzymatic assay, and X-ray crystallography validation."
      Cai J., Han C., Hu T., Zhang J., Wu D., Wang F., Liu Y., Ding J., Chen K., Yue J., Shen X., Jiang H.
      Protein Sci. 15:2071-2081(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.20 ANGSTROMS) OF 2-174.
    3. "Identification of Novel Peptide Deformylase Inhibitors from Natural Products."
      Cui K., Zhu L., Lu W., Huang J.
      Submitted (MAR-2012) to the PDB data bank
      Cited for: X-RAY CRYSTALLOGRAPHY (1.66 ANGSTROMS) OF 2-174.

    Entry informationi

    Entry nameiQ672W7_HELPX
    AccessioniPrimary (citable) accession number: Q672W7
    Entry historyi
    Integrated into UniProtKB/TrEMBL: October 11, 2004
    Last sequence update: October 11, 2004
    Last modified: October 1, 2014
    This is version 47 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    3D-structureImported

    External Data

    Dasty 3