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B9L6X1

- DEF_NAUPA

UniProt

B9L6X1 - DEF_NAUPA

Protein

Peptide deformylase

Gene

def

Organism
Nautilia profundicola (strain ATCC BAA-1463 / DSM 18972 / AmH)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 39 (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 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

    BioCyciNPRO598659:GH7N-1721-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:NAMH_1729
    OrganismiNautilia profundicola (strain ATCC BAA-1463 / DSM 18972 / AmH)
    Taxonomic identifieri598659 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaNautilialesNautiliaceaeNautilia
    ProteomesiUP000000448: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 174174Peptide deformylasePRO_1000200742Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi598659.NAMH_1729.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiWATCAQH.
    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.

    B9L6X1-1 [UniParc]FASTAAdd to Basket

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    MAVLDIVTYP NKVLKQISKP VERFDKDLHK LLDDMYETMI KNNGVGLAAI    50
    QVAVPIRALL IDIGDEEGKQ SKDTLIEVIN PEFLTWDGTQ KDTEGCLSVP 100
    DYFDEVERYK NVKVKFFDRF GKEHVMEAEG LLSVAFQHET DHLDGHLFVE 150
    RLDYIKRKKF EKEWKKLLKQ KRKK 174
    Length:174
    Mass (Da):20,341
    Last modified:March 24, 2009 - v1
    Checksum:i04087CD59657E845
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001279 Genomic DNA. Translation: ACM93397.1.
    RefSeqiYP_002608109.1. NC_012115.1.

    Genome annotation databases

    EnsemblBacteriaiACM93397; ACM93397; NAMH_1729.
    GeneIDi7505599.
    KEGGinam:NAMH_1729.
    PATRICi22678151. VBINauPro131435_1671.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001279 Genomic DNA. Translation: ACM93397.1 .
    RefSeqi YP_002608109.1. NC_012115.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 598659.NAMH_1729.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACM93397 ; ACM93397 ; NAMH_1729 .
    GeneIDi 7505599.
    KEGGi nam:NAMH_1729.
    PATRICi 22678151. VBINauPro131435_1671.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci NPRO598659:GH7N-1721-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. "Adaptations to submarine hydrothermal environments exemplified by the genome of Nautilia profundicola."
      Campbell B.J., Smith J.L., Hanson T.E., Klotz M.G., Stein L.Y., Lee C.K., Wu D., Robinson J.M., Khouri H.M., Eisen J.A., Cary S.C.
      PLoS Genet. 5:E1000362-E1000362(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC BAA-1463 / DSM 18972 / AmH.

    Entry informationi

    Entry nameiDEF_NAUPA
    AccessioniPrimary (citable) accession number: B9L6X1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: March 24, 2009
    Last modified: October 1, 2014
    This is version 39 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