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Protein

Peptide deformylase

Gene

def

Organism
Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
Status
Reviewed-Annotation score: Annotation score: 3 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 (By similarity).By similarity

Catalytic activityi

Formyl-L-methionyl peptide + H2O = formate + methionyl peptide.

Cofactori

Fe2+By similarityNote: Binds 1 Fe2+ ion.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi134 – 1341IronBy similarity
Metal bindingi178 – 1781IronBy similarity
Active sitei179 – 1791By similarity
Metal bindingi182 – 1821IronBy similarity

GO - Molecular functioni

  1. iron ion binding Source: InterPro
  2. peptide deformylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. translation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciMGEN243273:GH2R-110-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase (EC:3.5.1.88)
Short name:
PDF
Alternative name(s):
Polypeptide deformylase
Gene namesi
Name:def
Ordered Locus Names:MG106
OrganismiMycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
Taxonomic identifieri243273 [NCBI]
Taxonomic lineageiBacteriaTenericutesMollicutesMycoplasmataceaeMycoplasma
ProteomesiUP000000807 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 216216Peptide deformylasePRO_0000082801Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi243273.MG_106.

Structurei

3D structure databases

ProteinModelPortaliP47352.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.Curated

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiSQDPKIA.
OrthoDBiEOG6PZXGQ.

Family and domain databases

Gene3Di3.90.45.10. 1 hit.
HAMAPiMF_00163. Pep_deformylase.
InterProiIPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view]
PANTHERiPTHR10458. PTHR10458. 1 hit.
PfamiPF01327. Pep_deformylase. 1 hit.
[Graphical view]
PIRSFiPIRSF004749. Pep_def. 1 hit.
PRINTSiPR01576. PDEFORMYLASE.
SUPFAMiSSF56420. SSF56420. 1 hit.
TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.

Sequencei

Sequence statusi: Complete.

P47352-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTKILPWLFT SIVRIILTLL FLSMTFQPTK TWLVFDDNAL INKPTEAVNF
60 70 80 90 100
PIDEQIETCI KKMIAYVDAS YDGKAQEYDI IPGIGIAANQ IGYWKQLFYI
110 120 130 140 150
HLNDLNKEKK CLLINPKIID QSENKAFLES GEGCLSVKKQ HKGYVIRSEW
160 170 180 190 200
ITIKGYDWFE KKEITIKATG LFGMCLQHEF DHLQGRFFYQ RINPLNPWFK
210
KPEWKVINPT LKTSNG
Length:216
Mass (Da):25,171
Last modified:October 31, 1997 - v2
Checksum:i52D22E8FA58BEFC5
GO

Sequence cautioni

The sequence AAC71324.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L43967 Genomic DNA. Translation: AAC71324.1. Different initiation.
RefSeqiNP_072768.2. NC_000908.2.

Genome annotation databases

EnsemblBacteriaiAAC71324; AAC71324; MG_106.
KEGGimge:MG_106.
PATRICi20009616. VBIMycGen98045_0117.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L43967 Genomic DNA. Translation: AAC71324.1. Different initiation.
RefSeqiNP_072768.2. NC_000908.2.

3D structure databases

ProteinModelPortaliP47352.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243273.MG_106.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC71324; AAC71324; MG_106.
KEGGimge:MG_106.
PATRICi20009616. VBIMycGen98045_0117.

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiSQDPKIA.
OrthoDBiEOG6PZXGQ.

Enzyme and pathway databases

BioCyciMGEN243273:GH2R-110-MONOMER.

Family and domain databases

Gene3Di3.90.45.10. 1 hit.
HAMAPiMF_00163. Pep_deformylase.
InterProiIPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view]
PANTHERiPTHR10458. PTHR10458. 1 hit.
PfamiPF01327. Pep_deformylase. 1 hit.
[Graphical view]
PIRSFiPIRSF004749. Pep_def. 1 hit.
PRINTSiPR01576. PDEFORMYLASE.
SUPFAMiSSF56420. SSF56420. 1 hit.
TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 33530 / G-37 / NCTC 10195.

Entry informationi

Entry nameiDEF_MYCGE
AccessioniPrimary (citable) accession number: P47352
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 31, 1996
Last sequence update: October 31, 1997
Last modified: March 31, 2015
This is version 96 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. Mycoplasma genitalium
    Mycoplasma genitalium (strain G-37): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.