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B2KD65

- DEF_ELUMP

UniProt

B2KD65 - DEF_ELUMP

Protein

Peptide deformylase

Gene

def

Organism
Elusimicrobium minutum (strain Pei191)
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 (10 Jun 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 bindingi100 – 1001IronUniRule annotation
    Metal bindingi142 – 1421IronUniRule annotation
    Active sitei143 – 1431UniRule annotation
    Metal bindingi146 – 1461IronUniRule 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

    BioCyciEMIN445932:GHM0-940-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:Emin_0906
    OrganismiElusimicrobium minutum (strain Pei191)
    Taxonomic identifieri445932 [NCBI]
    Taxonomic lineageiBacteriaElusimicrobiaElusimicrobiaElusimicrobialesElusimicrobiaceaeElusimicrobium
    ProteomesiUP000001029: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 176176Peptide deformylasePRO_1000097309Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi445932.Emin_0906.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiFVYHCPD.
    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.

    B2KD65-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAVRRIVKYG EDILRQKLKP VDFKTLEPQL DAILQDMHDT CMSFQGAGLS    50
    ANQIGLTHRI AMIFIPEKTP KGEAQKFKRY VVINPVIVSK KGCVTDEEGC 100
    LSLPGLWVEI ERAESIVVHC LNEKGLPVEI HAKGFLAKAL QHEIDHLDGK 150
    IFIDHADPKL KPEIKKELKK LSKNWS 176
    Length:176
    Mass (Da):19,873
    Last modified:June 10, 2008 - v1
    Checksum:i3FB5719DA52BD690
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001055 Genomic DNA. Translation: ACC98461.1.
    RefSeqiYP_001875798.1. NC_010644.1.

    Genome annotation databases

    EnsemblBacteriaiACC98461; ACC98461; Emin_0906.
    GeneIDi6262636.
    KEGGiemi:Emin_0906.
    PATRICi21849040. VBIEluMin86178_0948.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001055 Genomic DNA. Translation: ACC98461.1 .
    RefSeqi YP_001875798.1. NC_010644.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 445932.Emin_0906.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACC98461 ; ACC98461 ; Emin_0906 .
    GeneIDi 6262636.
    KEGGi emi:Emin_0906.
    PATRICi 21849040. VBIEluMin86178_0948.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci EMIN445932:GHM0-940-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. "Genomic analysis of 'Elusimicrobium minutum,' the first cultivated representative of the phylum 'Elusimicrobia' (formerly termite group 1)."
      Herlemann D.P.R., Geissinger O., Ikeda-Ohtsubo W., Kunin V., Sun H., Lapidus A., Hugenholtz P., Brune A.
      Appl. Environ. Microbiol. 75:2841-2849(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Pei191.

    Entry informationi

    Entry nameiDEF_ELUMP
    AccessioniPrimary (citable) accession number: B2KD65
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: June 10, 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, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3