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Q3B2U9

- DEF_PELLD

UniProt

Q3B2U9 - DEF_PELLD

Protein

Peptide deformylase

Gene

def

Organism
Pelodictyon luteolum (strain DSM 273) (Chlorobium luteolum (strain DSM 273))
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 55 (01 Oct 2014)
      Sequence version 1 (22 Nov 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 bindingi94 – 941IronUniRule annotation
    Metal bindingi136 – 1361IronUniRule annotation
    Active sitei137 – 1371UniRule annotation
    Metal bindingi140 – 1401IronUniRule 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

    BioCyciPLUT319225:GHDM-1483-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:Plut_1473
    OrganismiPelodictyon luteolum (strain DSM 273) (Chlorobium luteolum (strain DSM 273))
    Taxonomic identifieri319225 [NCBI]
    Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupPelodictyon
    ProteomesiUP000002709: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 190190Peptide deformylasePRO_0000301076Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi319225.Plut_1473.

    Structurei

    3D structure databases

    ProteinModelPortaliQ3B2U9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243509.
    KOiK01462.
    OMAiPNQYAEV.
    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.

    Q3B2U9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MILPINTYSD EVLHQKAKPL KGVDADISSL IDSMFESMEN ASGIGLAAPQ    50
    VGCSIRLLVL DVSCMKSYED VPPMVVINPN VLAVRGKNLM EEGCLSVPGV 100
    QGDVLRPSEI TLKYRDRNFQ EHTEEFSGML ARVLQHEIDH LNGTLFVDRM 150
    EKRDRRRIQQ ELDDIAAGLV PADYPIAREC SRGGEGPACM 190
    Length:190
    Mass (Da):21,026
    Last modified:November 22, 2005 - v1
    Checksum:i107111E44D2FD063
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000096 Genomic DNA. Translation: ABB24332.1.
    RefSeqiYP_375375.1. NC_007512.1.

    Genome annotation databases

    EnsemblBacteriaiABB24332; ABB24332; Plut_1473.
    GeneIDi3745461.
    KEGGiplt:Plut_1473.
    PATRICi21380584. VBIChlLut1287_1550.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000096 Genomic DNA. Translation: ABB24332.1 .
    RefSeqi YP_375375.1. NC_007512.1.

    3D structure databases

    ProteinModelPortali Q3B2U9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 319225.Plut_1473.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABB24332 ; ABB24332 ; Plut_1473 .
    GeneIDi 3745461.
    KEGGi plt:Plut_1473.
    PATRICi 21380584. VBIChlLut1287_1550.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci PLUT319225:GHDM-1483-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 Pelodictyon luteolum DSM 273."
      US DOE Joint Genome Institute
      Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Bryant D., Schmutz J., Larimer F., Land M., Kyrpides N., Ivanova N., Richardson P.
      Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DSM 273.

    Entry informationi

    Entry nameiDEF_PELLD
    AccessioniPrimary (citable) accession number: Q3B2U9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 11, 2007
    Last sequence update: November 22, 2005
    Last modified: October 1, 2014
    This is version 55 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