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Protein

Peptide deformylase

Gene

def

Organism
Hydrogenovibrio crunogenus (strain XCL-2) (Thiomicrospira crunogena)
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 bindingi91IronUniRule annotation1
Metal bindingi133IronUniRule annotation1
Active sitei134UniRule annotation1
Metal bindingi137IronUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processProtein biosynthesis
LigandIron, Metal-binding

Enzyme and pathway databases

BioCyciTCRU317025:G1G4Z-197-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:Tcr_0193
OrganismiHydrogenovibrio crunogenus (strain XCL-2) (Thiomicrospira crunogena)
Taxonomic identifieri317025 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaThiotrichalesPiscirickettsiaceaeHydrogenovibrio
Proteomesi
  • UP000002713 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003011221 – 169Peptide deformylaseAdd BLAST169

Interactioni

Protein-protein interaction databases

STRINGi317025.Tcr_0193

Structurei

3D structure databases

ProteinModelPortaliQ31J84
SMRiQ31J84
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108Z02 Bacteria
COG0242 LUCA
HOGENOMiHOG000243509
KOiK01462
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.

Q31J84-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDKLDIVLYP DEGLREVCKP VPEMTDELDK LIDEMFYTMY DAPGIGLAAP
60 70 80 90 100
QVAVQQRLIV VDISETKDEP IALLNPEIIK TAGKITWEEG CLSIPGIYAK
110 120 130 140 150
VDRPSDILVR GMDRDGKTIE FEANELLAVC IQHEIDHLNG KLFIDHLSGL
160
KRTRAIQKFK KEMAEQANS
Length:169
Mass (Da):19,010
Last modified:December 6, 2005 - v1
Checksum:iFC6116A16D2622BF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000109 Genomic DNA Translation: ABB40789.1
RefSeqiWP_011369615.1, NC_007520.2

Genome annotation databases

EnsemblBacteriaiABB40789; ABB40789; Tcr_0193
KEGGitcx:Tcr_0193

Similar proteinsi

Entry informationi

Entry nameiDEF_HYDCU
AccessioniPrimary (citable) accession number: Q31J84
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: December 6, 2005
Last modified: March 28, 2018
This is version 81 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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Main funding by: National Institutes of Health