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B4S291

- DEF_ALTMD

UniProt

B4S291 - DEF_ALTMD

Protein

Peptide deformylase

Gene

def

Organism
Alteromonas macleodii (strain DSM 17117 / Deep ecotype)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 43 (01 Oct 2014)
      Sequence version 1 (23 Sep 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 bindingi91 – 911IronUniRule annotation
    Metal bindingi133 – 1331IronUniRule annotation
    Active sitei134 – 1341UniRule annotation
    Metal bindingi137 – 1371IronUniRule 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

    BioCyciAMAC314275:GHA7-21-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:MADE_1000105
    OrganismiAlteromonas macleodii (strain DSM 17117 / Deep ecotype)
    Taxonomic identifieri314275 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesAlteromonadaceaeAlteromonas
    ProteomesiUP000001870: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 169169Peptide deformylasePRO_1000097294Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi314275.MADE_00022.

    Structurei

    3D structure databases

    ProteinModelPortaliB4S291.
    SMRiB4S291. Positions 1-164.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    KOiK01462.
    OMAiPNQYAEV.

    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.

    B4S291-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAILDVLSFP DERLRTVAKP VEEVNDEIKQ LVSDMFETMK DENGIGLAAT    50
    QVNRHVQVVV MDVSEDQNEP RVFINPEITR KDGSTISEEG CLSVPGNYAK 100
    VERAEAITVK ALDQNGEAFE LDAEGLLAIC IQHELDHLKG KLFIDYLSPL 150
    KRQRIRKKLE KEARLAAKA 169
    Length:169
    Mass (Da):18,958
    Last modified:September 23, 2008 - v1
    Checksum:iBD8480690C7AB1C9
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001103 Genomic DNA. Translation: AEA96170.1.
    RefSeqiYP_004425168.1. NC_011138.3.

    Genome annotation databases

    EnsemblBacteriaiAEA96170; AEA96170; MADE_1000105.
    GeneIDi6775476.
    KEGGiamc:MADE_1000105.
    PATRICi20871297. VBIAltMac49397_0023.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001103 Genomic DNA. Translation: AEA96170.1 .
    RefSeqi YP_004425168.1. NC_011138.3.

    3D structure databases

    ProteinModelPortali B4S291.
    SMRi B4S291. Positions 1-164.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 314275.MADE_00022.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AEA96170 ; AEA96170 ; MADE_1000105 .
    GeneIDi 6775476.
    KEGGi amc:MADE_1000105.
    PATRICi 20871297. VBIAltMac49397_0023.

    Phylogenomic databases

    eggNOGi COG0242.
    KOi K01462.
    OMAi PNQYAEV.

    Enzyme and pathway databases

    BioCyci AMAC314275:GHA7-21-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. "Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter."
      Ivars-Martinez E., Martin-Cuadrado A.-B., D'Auria G., Mira A., Ferriera S., Johnson J., Friedman R., Rodriguez-Valera F.
      ISME J. 2:1194-1212(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DSM 17117 / Deep ecotype.

    Entry informationi

    Entry nameiDEF_ALTMD
    AccessioniPrimary (citable) accession number: B4S291
    Secondary accession number(s): F2G1S3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: September 23, 2008
    Last modified: October 1, 2014
    This is version 43 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