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Q8D5P5

- DEF2_VIBVU

UniProt

Q8D5P5 - DEF2_VIBVU

Protein

Peptide deformylase 2

Gene

def2

Organism
Vibrio vulnificus (strain CMCP6)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 69 (01 Oct 2014)
      Sequence version 1 (01 Mar 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 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

    BioCyciVVUL216895:GIYM-3683-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:VV2_0863
    OrganismiVibrio vulnificus (strain CMCP6)
    Taxonomic identifieri216895 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000002275: Chromosome 2

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 168168Peptide deformylase 2PRO_0000082878Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi216895.VV2_0863.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8D5P5.
    SMRiQ8D5P5. Positions 2-168.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiLKDMADT.
    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.

    Q8D5P5-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAVLEILTAP DPRLRVQSKE VTDVAAVQTL IDDLLETLYE TDNGVGLAAP    50
    QVGREEAIVV IDLSENRDEP LVLVNPKVVS GSNKEMGQEG CLSVPDYYAD 100
    VERYTSVVVE ALDRDGKPLR IETSEFLAIV MQHEIDHLSG NLFIDYLSPL 150
    KQQMAMKKVK KHNKLRAR 168
    Length:168
    Mass (Da):18,729
    Last modified:March 1, 2003 - v1
    Checksum:iD835D1F2ECFF68DC
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE016796 Genomic DNA. Translation: AAO07786.1.
    RefSeqiNP_762796.1. NC_004460.2.

    Genome annotation databases

    EnsemblBacteriaiAAO07786; AAO07786; VV2_0863.
    GeneIDi1180842.
    KEGGivvu:VV2_0863.
    PATRICi20165124. VBIVibVul94426_4019.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE016796 Genomic DNA. Translation: AAO07786.1 .
    RefSeqi NP_762796.1. NC_004460.2.

    3D structure databases

    ProteinModelPortali Q8D5P5.
    SMRi Q8D5P5. Positions 2-168.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 216895.VV2_0863.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAO07786 ; AAO07786 ; VV2_0863 .
    GeneIDi 1180842.
    KEGGi vvu:VV2_0863.
    PATRICi 20165124. VBIVibVul94426_4019.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci VVUL216895:GIYM-3683-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. "Complete genome sequence of Vibrio vulnificus CMCP6."
      Rhee J.H., Kim S.Y., Chung S.S., Kim J.J., Moon Y.H., Jeong H., Choy H.E.
      Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: CMCP6.

    Entry informationi

    Entry nameiDEF2_VIBVU
    AccessioniPrimary (citable) accession number: Q8D5P5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 23, 2003
    Last sequence update: March 1, 2003
    Last modified: October 1, 2014
    This is version 69 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