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Protein

Peptide deformylase

Gene

def

Organism
Streptococcus thermophilus (strain CNRZ 1066)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

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

Fe2+UniRule annotationNote: Binds 1 Fe2+ ion.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi131IronUniRule annotation1
Metal bindingi174IronUniRule annotation1
Active sitei175UniRule annotation1
Metal bindingi178IronUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processProtein biosynthesis
LigandIron, Metal-binding

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:str0151
OrganismiStreptococcus thermophilus (strain CNRZ 1066)
Taxonomic identifieri299768 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesStreptococcaceaeStreptococcus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003011131 – 204Peptide deformylaseAdd BLAST204

Structurei

3D structure databases

ProteinModelPortaliQ5M1R9
SMRiQ5M1R9
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000243507
KOiK01462
OMAiMILMKDI

Family and domain databases

CDDicd00487 Pep_deformylase, 1 hit
Gene3Di3.90.45.10, 1 hit
HAMAPiMF_00163 Pep_deformylase, 1 hit
InterProiView protein in InterPro
IPR023635 Peptide_deformylase
IPR036821 Peptide_deformylase_sf
PANTHERiPTHR10458 PTHR10458, 1 hit
PfamiView protein in Pfam
PF01327 Pep_deformylase, 1 hit
PIRSFiPIRSF004749 Pep_def, 1 hit
PRINTSiPR01576 PDEFORMYLASE
SUPFAMiSSF56420 SSF56420, 1 hit
TIGRFAMsiTIGR00079 pept_deformyl, 1 hit

Sequencei

Sequence statusi: Complete.

Q5M1R9-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDAQTKIIRA SHMIDMNDII REGNPTLRAV AEDVTLPLSD EDIILGEKMM
60 70 80 90 100
QFLRNSQDPV IAEKMGLRGG VGLAAPQLDI SKRIIAVLVP NPEDAKGNPP
110 120 130 140 150
KEAYSLQEIM YNPKVVAHSV QEAALGNGEG CLSVDRDVPG YVVRHARVTI
160 170 180 190 200
EYFNKEGEKK RIKLRGYDSI VVQHEIDHTN GIMFYDRINK DNPFTIKDGL

LIIE
Length:204
Mass (Da):22,777
Last modified:February 1, 2005 - v1
Checksum:i0E3CA97B1C7E7ADA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000024 Genomic DNA Translation: AAV61765.1
RefSeqiWP_011225356.1, NC_006449.1

Genome annotation databases

EnsemblBacteriaiAAV61765; AAV61765; str0151
GeneIDi31939607
KEGGistc:str0151

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000024 Genomic DNA Translation: AAV61765.1
RefSeqiWP_011225356.1, NC_006449.1

3D structure databases

ProteinModelPortaliQ5M1R9
SMRiQ5M1R9
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAV61765; AAV61765; str0151
GeneIDi31939607
KEGGistc:str0151

Phylogenomic databases

HOGENOMiHOG000243507
KOiK01462
OMAiMILMKDI

Family and domain databases

CDDicd00487 Pep_deformylase, 1 hit
Gene3Di3.90.45.10, 1 hit
HAMAPiMF_00163 Pep_deformylase, 1 hit
InterProiView protein in InterPro
IPR023635 Peptide_deformylase
IPR036821 Peptide_deformylase_sf
PANTHERiPTHR10458 PTHR10458, 1 hit
PfamiView protein in Pfam
PF01327 Pep_deformylase, 1 hit
PIRSFiPIRSF004749 Pep_def, 1 hit
PRINTSiPR01576 PDEFORMYLASE
SUPFAMiSSF56420 SSF56420, 1 hit
TIGRFAMsiTIGR00079 pept_deformyl, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiDEF_STRT1
AccessioniPrimary (citable) accession number: Q5M1R9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: February 1, 2005
Last modified: October 10, 2018
This is version 77 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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