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B6JM24

- DEF_HELP2

UniProt

B6JM24 - DEF_HELP2

Protein

Peptide deformylase

Gene

def

Organism
Helicobacter pylori (strain P12)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 35 (01 Oct 2014)
      Sequence version 1 (16 Dec 2008)
      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 bindingi96 – 961IronUniRule annotation
    Metal bindingi138 – 1381IronUniRule annotation
    Active sitei139 – 1391UniRule annotation
    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

    Hydrolase

    Keywords - Biological processi

    Protein biosynthesis

    Keywords - Ligandi

    Iron, Metal-binding

    Enzyme and pathway databases

    BioCyciHPYL570508:GJ8D-815-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:HPP12_0800
    OrganismiHelicobacter pylori (strain P12)
    Taxonomic identifieri570508 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
    ProteomesiUP000008198: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 174174Peptide deformylasePRO_1000097314Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi570508.HPP12_0800.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiTHRAWYA.
    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.

    B6JM24-1 [UniParc]FASTAAdd to Basket

    « Hide

    MALLEIIHYP SKILRTISKE VVSFDSKLHQ QLDDMHETMI ASEGIGLAAI    50
    QVGLPLRMLI INLPQEDGVQ HKEDCLEIIN PKWIETKGSM MYKEGCLSVP 100
    GFYEEVERFE KVKIEYQNRF AEVKILEASE LLAVAIQHEI DHLNGVLFVD 150
    KLSILKRKKF EKELKELQKK QKRE 174
    Length:174
    Mass (Da):20,173
    Last modified:December 16, 2008 - v1
    Checksum:iD0481B0210F5918C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001217 Genomic DNA. Translation: ACJ07952.1.
    RefSeqiYP_002301432.1. NC_011498.1.

    Genome annotation databases

    EnsemblBacteriaiACJ07952; ACJ07952; HPP12_0800.
    GeneIDi7009935.
    KEGGihpp:HPP12_0800.
    PATRICi20609593. VBIHelPyl2824_0836.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001217 Genomic DNA. Translation: ACJ07952.1 .
    RefSeqi YP_002301432.1. NC_011498.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 570508.HPP12_0800.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACJ07952 ; ACJ07952 ; HPP12_0800 .
    GeneIDi 7009935.
    KEGGi hpp:HPP12_0800.
    PATRICi 20609593. VBIHelPyl2824_0836.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci HPYL570508:GJ8D-815-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 Helicobacter pylori strain P12."
      Fischer W., Windhager L., Karnholz A., Zeiller M., Zimmer R., Haas R.
      Submitted (OCT-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: P12.

    Entry informationi

    Entry nameiDEF_HELP2
    AccessioniPrimary (citable) accession number: B6JM24
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: December 16, 2008
    Last modified: October 1, 2014
    This is version 35 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