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Protein

Peptide deformylase

Gene

def

Organism
Clostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
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 bindingi88IronUniRule annotation1
Metal bindingi130IronUniRule annotation1
Active sitei131UniRule annotation1
Metal bindingi134IronUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processProtein biosynthesis
LigandIron, Metal-binding

Enzyme and pathway databases

BioCyciCTHE203119:G1G86-593-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:Cthe_0567
OrganismiClostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
Taxonomic identifieri203119 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesRuminococcaceaeRuminiclostridium
Proteomesi
  • UP000002145 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003010211 – 170Peptide deformylaseAdd BLAST170

Interactioni

Protein-protein interaction databases

STRINGi203119.Cthe_0567

Structurei

3D structure databases

ProteinModelPortaliA3DCX4
SMRiA3DCX4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108Z02 Bacteria
COG0242 LUCA
HOGENOMiHOG000243509
KOiK01462
OMAiDGFHARV
OrthoDBiPOG091H02B0

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.

A3DCX4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAVRFIREDG DEILRKVSKK VDVIDERIKT LLDDMAETMY AANGVGLAAP
60 70 80 90 100
QVGVLKRVVV IDVGDGLMEL INPEIVEQEG EQIDIEGCLS IPGVAGEVKR
110 120 130 140 150
PARVVVEALN REGEKITVEG KELLAVALCH EIDHLDGILF TDKVIRFIDE
160 170
DEMERRRENK RRNKIRQNKG
Length:170
Mass (Da):19,085
Last modified:March 20, 2007 - v1
Checksum:i70752E03322070CD
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000568 Genomic DNA Translation: ABN51803.1
RefSeqiWP_003517641.1, NC_009012.1

Genome annotation databases

EnsemblBacteriaiABN51803; ABN51803; Cthe_0567
GeneIDi35803143
KEGGicth:Cthe_0567

Similar proteinsi

Entry informationi

Entry nameiDEF_CLOTH
AccessioniPrimary (citable) accession number: A3DCX4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: March 20, 2007
Last modified: April 25, 2018
This is version 67 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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