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B8D9R9

- DEF_BUCA5

UniProt

B8D9R9 - DEF_BUCA5

Protein

Peptide deformylase

Gene

def

Organism
Buchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A)
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 (03 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 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

    BioCyciBAPH563178:GHDF-489-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:BUAP5A_489
    OrganismiBuchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A)
    Taxonomic identifieri563178 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera
    ProteomesiUP000006904: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 173173Peptide deformylasePRO_1000200717Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi107806.BU496.

    Structurei

    3D structure databases

    ProteinModelPortaliB8D9R9.
    SMRiB8D9R9. Positions 2-165.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiELLAICI.
    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.

    B8D9R9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSLLKILYYP DIRLRILAKP VKEINKKIQK IANDMIDTMY QEEGIGLAAT    50
    QVNIPLQIIV VNTMEQKKNN LVLINPKIIK KEGDISIEEG CLSIPEYQAS 100
    IPRSNYIQVQ AVNLDGEKIE IEAKSILSIC IQHEIDHLKG KLFIDYLSKF 150
    KRERIQKKFE KINKKNKKFS IKE 173
    Length:173
    Mass (Da):20,038
    Last modified:March 3, 2009 - v1
    Checksum:iBAF78C26E56BED31
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001161 Genomic DNA. Translation: ACL30840.1.
    RefSeqiWP_009874447.1. NC_011833.1.
    YP_002468228.1. NC_011833.1.

    Genome annotation databases

    EnsemblBacteriaiACL30840; ACL30840; BUAP5A_489.
    GeneIDi7262251.
    KEGGibap:BUAP5A_489.
    PATRICi21243245. VBIBucAph51993_0486.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001161 Genomic DNA. Translation: ACL30840.1 .
    RefSeqi WP_009874447.1. NC_011833.1.
    YP_002468228.1. NC_011833.1.

    3D structure databases

    ProteinModelPortali B8D9R9.
    SMRi B8D9R9. Positions 2-165.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 107806.BU496.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACL30840 ; ACL30840 ; BUAP5A_489 .
    GeneIDi 7262251.
    KEGGi bap:BUAP5A_489.
    PATRICi 21243245. VBIBucAph51993_0486.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci BAPH563178:GHDF-489-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 dynamics and time scale of ongoing genomic erosion in symbiotic bacteria."
      Moran N.A., McLaughlin H.J., Sorek R.
      Science 323:379-382(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 5A.

    Entry informationi

    Entry nameiDEF_BUCA5
    AccessioniPrimary (citable) accession number: B8D9R9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: March 3, 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

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3