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Protein

Peptide deformylase 1

Gene

def1

Organism
Xanthomonas axonopodis pv. citri (strain 306)
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

Caution

The third iron-binding site which is normally a His is replaced here by Asn-145.Curated

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 bindingi99IronUniRule annotation1
Metal bindingi141IronUniRule annotation1
Active sitei142UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processProtein biosynthesis
LigandIron, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase 1UniRule annotation (EC:3.5.1.88UniRule annotation)
Short name:
PDF 1UniRule annotation
Alternative name(s):
Polypeptide deformylase 1UniRule annotation
Gene namesi
Name:def1UniRule annotation
Ordered Locus Names:XAC3510
OrganismiXanthomonas axonopodis pv. citri (strain 306)
Taxonomic identifieri190486 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXanthomonas
Proteomesi
  • UP000000576 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000828831 – 171Peptide deformylase 1Add BLAST171

Interactioni

Protein-protein interaction databases

STRINGi190486.XAC3510

Structurei

3D structure databases

ProteinModelPortaliQ8PGV2
SMRiQ8PGV2
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108RBJ Bacteria
COG0242 LUCA
HOGENOMiHOG000243508
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.

Q8PGV2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIREIIRMGD KRLLRVAPPV TNLGSAELHT LVADMFETMD AARGVGLAAP
60 70 80 90 100
QIAVDLQLMV FGFDASERYP EAPAVPRTAL ANAQIEPLSE DMENGWEGCL
110 120 130 140 150
SIPGLRAVIP RYRFIRYRGF APDGSPIERD AEGFHARVVQ HEYDNLVGRL
160 170
YPSRIENFDT FGFEDVLSYD L
Length:171
Mass (Da):19,142
Last modified:October 1, 2002 - v1
Checksum:i983EDE2F995723F1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE008923 Genomic DNA Translation: AAM38353.1
RefSeqiWP_011052322.1, NC_003919.1

Genome annotation databases

EnsemblBacteriaiAAM38353; AAM38353; XAC3510
KEGGixac:XAC3510

Similar proteinsi

Entry informationi

Entry nameiDEF1_XANAC
AccessioniPrimary (citable) accession number: Q8PGV2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 25, 2002
Last sequence update: October 1, 2002
Last modified: March 28, 2018
This is version 92 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