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B1XJP0

- DEF_SYNP2

UniProt

B1XJP0 - DEF_SYNP2

Protein

Peptide deformylase

Gene

def

Organism
Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)
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 (20 May 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 bindingi107 – 1071IronUniRule annotation
    Metal bindingi149 – 1491IronUniRule annotation
    Active sitei150 – 1501UniRule annotation
    Metal bindingi153 – 1531IronUniRule 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

    BioCyciSSP32049:GKF7-2349-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:SYNPCC7002_A2348
    OrganismiSynechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)
    Taxonomic identifieri32049 [NCBI]
    Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
    ProteomesiUP000001688: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 187187Peptide deformylasePRO_1000097352Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi32049.SYNPCC7002_A2348.

    Structurei

    3D structure databases

    ProteinModelPortaliB1XJP0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiMEMVFYP.
    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.

    B1XJP0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTVGISVEKG KQDTPPLELH YLGDKVLRQK AKRIAKVDDE IRTLAKEMLQ    50
    TMYSSQGIGL AAPQVGVNKR LIVIDTDPEN PANAPLVLIN PEIKKFGQQL 100
    CPFEEGCLSI PGVHLDVIRP DEIEVSYRDE QGKPKRIKAS GLLSRVIQHE 150
    IDHLDGVMFV DRVENEIALS SQLKQRGFAL KSVQRIA 187
    Length:187
    Mass (Da):20,828
    Last modified:May 20, 2008 - v1
    Checksum:iDC4D1D57D4A8F753
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000951 Genomic DNA. Translation: ACB00326.1.
    RefSeqiWP_012307944.1. NC_010475.1.
    YP_001735581.1. NC_010475.1.

    Genome annotation databases

    EnsemblBacteriaiACB00326; ACB00326; SYNPCC7002_A2348.
    GeneIDi6056809.
    KEGGisyp:SYNPCC7002_A2348.
    PATRICi23819330. VBISynSp37135_2595.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000951 Genomic DNA. Translation: ACB00326.1 .
    RefSeqi WP_012307944.1. NC_010475.1.
    YP_001735581.1. NC_010475.1.

    3D structure databases

    ProteinModelPortali B1XJP0.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 32049.SYNPCC7002_A2348.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACB00326 ; ACB00326 ; SYNPCC7002_A2348 .
    GeneIDi 6056809.
    KEGGi syp:SYNPCC7002_A2348.
    PATRICi 23819330. VBISynSp37135_2595.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci SSP32049:GKF7-2349-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 sequence of Synechococcus sp. PCC 7002."
      Li T., Zhao J., Zhao C., Liu Z., Zhao F., Marquardt J., Nomura C.T., Persson S., Detter J.C., Richardson P.M., Lanz C., Schuster S.C., Wang J., Li S., Huang X., Cai T., Yu Z., Luo J., Zhao J., Bryant D.A.
      Submitted (FEB-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 27264 / PCC 7002 / PR-6.

    Entry informationi

    Entry nameiDEF_SYNP2
    AccessioniPrimary (citable) accession number: B1XJP0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: May 20, 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