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B2S3Z6

- DEF_TREPS

UniProt

B2S3Z6 - DEF_TREPS

Protein

Peptide deformylase

Gene

def

Organism
Treponema pallidum subsp. pallidum (strain SS14)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 42 (01 Oct 2014)
      Sequence version 1 (01 Jul 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 bindingi86 – 861IronUniRule annotation
    Metal bindingi128 – 1281IronUniRule annotation
    Active sitei129 – 1291UniRule annotation
    Metal bindingi132 – 1321IronUniRule 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

    BioCyciTPAL455434:GJ9E-797-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:TPASS_0757
    OrganismiTreponema pallidum subsp. pallidum (strain SS14)
    Taxonomic identifieri455434 [NCBI]
    Taxonomic lineageiBacteriaSpirochaetesSpirochaetalesSpirochaetaceaeTreponema
    ProteomesiUP000001202: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 162162Peptide deformylasePRO_1000097357Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi455434.TPASS_0757.

    Structurei

    3D structure databases

    ProteinModelPortaliB2S3Z6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiDMYDTMD.
    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.

    B2S3Z6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MELKFLGEPC LTTVSEPVSE VDEQLRAFIS GMFRVMRGAG GVGLAAPQVG    50
    RTVRVFVVDV EHHVRAFINP QITAASEEQS SYEEGCLSIP HIYERVLRPR 100
    RVSVQYLDEN GKRCAVDADG ILARVIQHEY DHLDGILFLD RIDEKRRDDA 150
    LRRYAALRGT IR 162
    Length:162
    Mass (Da):18,323
    Last modified:July 1, 2008 - v1
    Checksum:i15AEA6C940819CC1
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000805 Genomic DNA. Translation: ACD71175.1.
    RefSeqiYP_001933754.1. NC_010741.1.
    YP_008119484.1. NC_021508.1.

    Genome annotation databases

    EnsemblBacteriaiACD71175; ACD71175; TPASS_0757.
    GeneIDi15843620.
    6333575.
    KEGGitpp:TPASS_0757.
    PATRICi20529299. VBITrePal10923_0800.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000805 Genomic DNA. Translation: ACD71175.1 .
    RefSeqi YP_001933754.1. NC_010741.1.
    YP_008119484.1. NC_021508.1.

    3D structure databases

    ProteinModelPortali B2S3Z6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 455434.TPASS_0757.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACD71175 ; ACD71175 ; TPASS_0757 .
    GeneIDi 15843620.
    6333575.
    KEGGi tpp:TPASS_0757.
    PATRICi 20529299. VBITrePal10923_0800.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci TPAL455434:GJ9E-797-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 Treponema pallidum ssp. pallidum strain SS14 determined with oligonucleotide arrays."
      Matejkova P., Strouhal M., Smajs D., Norris S.J., Palzkill T., Petrosino J.F., Sodergren E., Norton J.E., Singh J., Richmond T.A., Molla M.N., Albert T.J., Weinstock G.M.
      BMC Microbiol. 8:76-76(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: SS14.

    Entry informationi

    Entry nameiDEF_TREPS
    AccessioniPrimary (citable) accession number: B2S3Z6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: July 1, 2008
    Last modified: October 1, 2014
    This is version 42 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