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Q48661

- DEF_LACLA

UniProt

Q48661 - DEF_LACLA

Protein

Peptide deformylase

Gene

def

Organism
Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 3 (27 Apr 2001)
      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 By similarity.By similarity

    Catalytic activityi

    Formyl-L-methionyl peptide + H2O = formate + methionyl peptide.

    Cofactori

    Binds 1 Fe2+ ion.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi123 – 1231IronBy similarity
    Metal bindingi166 – 1661IronBy similarity
    Active sitei167 – 1671By similarity
    Metal bindingi170 – 1701IronBy similarity

    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

    BioCyciLLAC272623:GHSH-617-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Peptide deformylase (EC:3.5.1.88)
    Short name:
    PDF
    Alternative name(s):
    Polypeptide deformylase
    Gene namesi
    Name:def
    Ordered Locus Names:LL0560
    ORF Names:L154885
    OrganismiLactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)
    Taxonomic identifieri272623 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeLactococcus
    ProteomesiUP000002196: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 196196Peptide deformylasePRO_0000082792Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi272623.L154885.

    Structurei

    3D structure databases

    ProteinModelPortaliQ48661.
    SMRiQ48661. Positions 1-195.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polypeptide deformylase family.Curated

    Phylogenomic databases

    eggNOGiCOG0242.
    HOGENOMiHOG000243507.
    KOiK01462.
    OMAiSQDPKIA.
    OrthoDBiEOG6PZXGQ.

    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.

    Q48661-1 [UniParc]FASTAAdd to Basket

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    MISMDDIIRE GYPTLREVAN DVTLPLSDED IILGEKMLQF LHNSQDPVMA    50
    EKMGLRGGVG LAANQLGLLK KVIAVLIPNE PEVDEDGNEI PPKEAYKMRE 100
    IMYNAKVVSH SVQDAAVEGG EGCLSVDREV PGYVVRHARV TVEYYNKEGE 150
    KKKIRLKDFP AICVQHEIDH TNGVMFYDHI NMNDPWEIKD GMIIVK 196
    Length:196
    Mass (Da):22,047
    Last modified:April 27, 2001 - v3
    Checksum:iC5914BB3A92BF243
    GO

    Sequence cautioni

    The sequence AAC41454.1 differs from that shown. Reason: Erroneous initiation.
    The sequence AAK04658.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti86 – 861D → E in AAC41454. (PubMed:7773380)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L36907 Genomic DNA. Translation: AAC41454.1. Different initiation.
    AE005176 Genomic DNA. Translation: AAK04658.1. Different initiation.
    PIRiH86694.
    RefSeqiNP_266716.1. NC_002662.1.

    Genome annotation databases

    EnsemblBacteriaiAAK04658; AAK04658; L154885.
    GeneIDi1114179.
    KEGGilla:L154885.
    PATRICi22293378. VBILacLac136773_0598.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L36907 Genomic DNA. Translation: AAC41454.1 . Different initiation.
    AE005176 Genomic DNA. Translation: AAK04658.1 . Different initiation.
    PIRi H86694.
    RefSeqi NP_266716.1. NC_002662.1.

    3D structure databases

    ProteinModelPortali Q48661.
    SMRi Q48661. Positions 1-195.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 272623.L154885.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAK04658 ; AAK04658 ; L154885 .
    GeneIDi 1114179.
    KEGGi lla:L154885.
    PATRICi 22293378. VBILacLac136773_0598.

    Phylogenomic databases

    eggNOGi COG0242.
    HOGENOMi HOG000243507.
    KOi K01462.
    OMAi SQDPKIA.
    OrthoDBi EOG6PZXGQ.

    Enzyme and pathway databases

    BioCyci LLAC272623:GHSH-617-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. "Lactococcus lactis glyceraldehyde-3-phosphate dehydrogenase gene, gap: further evidence for strongly biased codon usage in glycolytic pathway genes."
      Cancilla M.R., Hillier A.J., Davidson B.E.
      Microbiology 141:1027-1036(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: LM0230.
    2. "The complete genome sequence of the lactic acid bacterium Lactococcus lactis ssp. lactis IL1403."
      Bolotin A., Wincker P., Mauger S., Jaillon O., Malarme K., Weissenbach J., Ehrlich S.D., Sorokin A.
      Genome Res. 11:731-753(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: IL1403.

    Entry informationi

    Entry nameiDEF_LACLA
    AccessioniPrimary (citable) accession number: Q48661
    Secondary accession number(s): Q9CI08
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: April 27, 2001
    Last modified: October 1, 2014
    This is version 100 of the entry and version 3 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