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Q7MGK6

- DEF2_VIBVY

UniProt

Q7MGK6 - DEF2_VIBVY

Protein

Peptide deformylase 2

Gene

def2

Organism
Vibrio vulnificus (strain YJ016)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 67 (01 Oct 2014)
      Sequence version 1 (15 Dec 2003)
      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 bindingi123 – 1231IronUniRule annotation
    Metal bindingi165 – 1651IronUniRule annotation
    Active sitei166 – 1661UniRule annotation
    Metal bindingi169 – 1691IronUniRule 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

    BioCyciVVUL196600:GJ9W-3350-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Peptide deformylase 2UniRule annotation (EC:3.5.1.88UniRule annotation)
    Short name:
    PDF 2UniRule annotation
    Alternative name(s):
    Polypeptide deformylase 2UniRule annotation
    Gene namesi
    Name:def2UniRule annotation
    Ordered Locus Names:VV3225
    OrganismiVibrio vulnificus (strain YJ016)
    Taxonomic identifieri196600 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000002675: Chromosome I

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 202202Peptide deformylase 2PRO_0000082880Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi196600.VV3225.

    Structurei

    3D structure databases

    ProteinModelPortaliQ7MGK6.
    SMRiQ7MGK6. Positions 34-200.
    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.

    Q7MGK6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLLGCCHLGY KMSRIEPTRF VLFRHSSTFR VHMSVLQVLT FPDDRLRTVA    50
    KPVEKVTPEI QKIVDDMIET MYDEEGIGLA ATQVDIHQRI VVIDISESRN 100
    EPMVLINPEI LEKRGEDGIE EGCLSVPGAR ALVPRAAEVT VKALDRDGHE 150
    FTLEADDLLA ICIQHELDHL QGKLFVDYLS PLKRKRIQDK LAKIKRFNEK 200
    QR 202
    Length:202
    Mass (Da):23,099
    Last modified:December 15, 2003 - v1
    Checksum:i95DF963B38BF060A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000037 Genomic DNA. Translation: BAC95989.1.
    RefSeqiNP_936018.1. NC_005139.1.
    WP_011151422.1. NC_005139.1.

    Genome annotation databases

    EnsemblBacteriaiBAC95989; BAC95989; BAC95989.
    GeneIDi2626101.
    KEGGivvy:VV3225.
    PATRICi20173351. VBIVibVul40472_3191.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000037 Genomic DNA. Translation: BAC95989.1 .
    RefSeqi NP_936018.1. NC_005139.1.
    WP_011151422.1. NC_005139.1.

    3D structure databases

    ProteinModelPortali Q7MGK6.
    SMRi Q7MGK6. Positions 34-200.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 196600.VV3225.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAC95989 ; BAC95989 ; BAC95989 .
    GeneIDi 2626101.
    KEGGi vvy:VV3225.
    PATRICi 20173351. VBIVibVul40472_3191.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci VVUL196600:GJ9W-3350-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: YJ016.

    Entry informationi

    Entry nameiDEF2_VIBVY
    AccessioniPrimary (citable) accession number: Q7MGK6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 2003
    Last sequence update: December 15, 2003
    Last modified: October 1, 2014
    This is version 67 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