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Protein

Peptide deformylase

Gene

def

Organism
Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-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 bindingi113IronUniRule annotation1
Metal bindingi156IronUniRule annotation1
Active sitei157UniRule annotation1
Metal bindingi160IronUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processProtein biosynthesis
LigandIron, Metal-binding

Enzyme and pathway databases

BioCyciLPLA220668:G137Z-1835-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
Synonyms:def1
Ordered Locus Names:lp_2155
OrganismiLactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
Taxonomic identifieri220668 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
Proteomesi
  • UP000000432 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000827931 – 186Peptide deformylaseAdd BLAST186

Interactioni

Protein-protein interaction databases

STRINGi220668.lp_2155.

Structurei

3D structure databases

ProteinModelPortaliQ88VB2.
SMRiQ88VB2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108Z02. Bacteria.
COG0242. LUCA.
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.
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.

Q88VB2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIKMRDIIRE GNHTLRAEAK QVKFPLSEAD QKLANDMMEY LENSQDPELA
60 70 80 90 100
KKYGLRAGVG LAAPQVDVSE QMAAVLVPSE NEDDEPVFKD VIINPVIISH
110 120 130 140 150
SVQPGALTEG EGCLSVDRDI AGYVIRHDRI TLRYYNMAGE EKKIRLKNYP
160 170 180
AIVCQHEIDH LHGILFYDHI NGDNPFAADD DLVLIS
Length:186
Mass (Da):20,855
Last modified:June 1, 2003 - v1
Checksum:iE080FF56D7723576
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL935263 Genomic DNA. Translation: CCC79383.1.
RefSeqiWP_003645922.1. NC_004567.2.
YP_004889897.1. NC_004567.2.

Genome annotation databases

EnsemblBacteriaiCCC79383; CCC79383; lp_2155.
GeneIDi1063706.
KEGGilpl:lp_2155.
PATRICifig|220668.9.peg.1824.

Similar proteinsi

Entry informationi

Entry nameiDEF_LACPL
AccessioniPrimary (citable) accession number: Q88VB2
Secondary accession number(s): F9UQ94
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 31, 2003
Last sequence update: June 1, 2003
Last modified: August 30, 2017
This is version 82 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families