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Q4FVQ4

- DEF_PSYA2

UniProt

Q4FVQ4 - DEF_PSYA2

Protein

Peptide deformylase

Gene

def

Organism
Psychrobacter arcticus (strain DSM 17307 / 273-4)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 58 (01 Oct 2014)
      Sequence version 1 (30 Aug 2005)
      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 bindingi92 – 921IronUniRule annotation
    Metal bindingi134 – 1341IronUniRule annotation
    Active sitei135 – 1351UniRule annotation
    Metal bindingi138 – 1381IronUniRule 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

    BioCyciPARC259536:GI3A-30-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:Psyc_0030
    OrganismiPsychrobacter arcticus (strain DSM 17307 / 273-4)
    Taxonomic identifieri259536 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesMoraxellaceaePsychrobacter
    ProteomesiUP000000546: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 184184Peptide deformylasePRO_0000301084Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi259536.Psyc_0030.

    Structurei

    3D structure databases

    ProteinModelPortaliQ4FVQ4.
    SMRiQ4FVQ4. Positions 1-162.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiTIMYKEG.
    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.

    Q4FVQ4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MALLPILSYP DPRLRMIATP VKEVTAEIKT LITDMIETMY DAEGIGLAAS    50
    QVDHHIQLIV MDLSEDKDSP RVFINPKVTP LVEEKQPYEE GCLSVPDVYD 100
    KVERPNKVRI EAIDQNGNAI DEEVEGLLAV CIQHEIDHLN GVIFVDYLSR 150
    LKQTRARDKV RKVLKIREKQ GEQVAEKEPQ PANS 184
    Length:184
    Mass (Da):20,810
    Last modified:August 30, 2005 - v1
    Checksum:i725739E26DA0433B
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000082 Genomic DNA. Translation: AAZ17904.1.
    RefSeqiYP_263338.1. NC_007204.1.

    Genome annotation databases

    EnsemblBacteriaiAAZ17904; AAZ17904; Psyc_0030.
    GeneIDi3514766.
    KEGGipar:Psyc_0030.
    PATRICi23054183. VBIPsyArc98534_0038.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000082 Genomic DNA. Translation: AAZ17904.1 .
    RefSeqi YP_263338.1. NC_007204.1.

    3D structure databases

    ProteinModelPortali Q4FVQ4.
    SMRi Q4FVQ4. Positions 1-162.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 259536.Psyc_0030.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAZ17904 ; AAZ17904 ; Psyc_0030 .
    GeneIDi 3514766.
    KEGGi par:Psyc_0030.
    PATRICi 23054183. VBIPsyArc98534_0038.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci PARC259536:GI3A-30-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 genome sequence of Psychrobacter arcticus 273-4, a psychroactive Siberian permafrost bacterium, reveals mechanisms for adaptation to low-temperature growth."
      Ayala-del-Rio H.L., Chain P.S., Grzymski J.J., Ponder M.A., Ivanova N., Bergholz P.W., Di Bartolo G., Hauser L., Land M., Bakermans C., Rodrigues D., Klappenbach J., Zarka D., Larimer F., Richardson P., Murray A., Thomashow M., Tiedje J.M.
      Appl. Environ. Microbiol. 76:2304-2312(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DSM 17307 / 273-4.

    Entry informationi

    Entry nameiDEF_PSYA2
    AccessioniPrimary (citable) accession number: Q4FVQ4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 11, 2007
    Last sequence update: August 30, 2005
    Last modified: October 1, 2014
    This is version 58 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