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Protein

Peptide deformylase

Gene

def

Organism
Mycoplasma pneumoniae (strain ATCC 29342 / M129)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciMPNE272634:GJ6Z-252-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:MPN_245
ORF Names:MP587
OrganismiMycoplasma pneumoniae (strain ATCC 29342 / M129)
Taxonomic identifieri272634 [NCBI]
Taxonomic lineageiBacteriaTenericutesMollicutesMycoplasmataceaeMycoplasma
ProteomesiUP000000808 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 216216Peptide deformylasePRO_0000082803Add
BLAST

Proteomic databases

PaxDbiP75527.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
itself1EBI-2259869,EBI-2259869

Protein-protein interaction databases

IntActiP75527. 1 interaction.
STRINGi272634.MPN245.

Structurei

3D structure databases

ProteinModelPortaliP75527.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.Curated

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiTISIFRI.
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.

P75527-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTKILPVSTI SIFRIILILP QINMELLPTK AWLVLDDVKE INEPTKPVQF
60 70 80 90 100
PLDQASLDCI AKMMAYVDAS YNGDAEKYGI IPGIGIAANQ IGYWKQMFYI
110 120 130 140 150
HLMDGGVEHK CLLINPKIIN LSANKSFLKS GEGCLSVPKM HQGYVIRHEW
160 170 180 190 200
ITITGFDWLQ QKEITITATG LFGMCLQHEF DHLQGRFYYH RINPLNPLFT
210
NKEWKVINPA LPSDSE
Length:216
Mass (Da):24,592
Last modified:February 1, 1997 - v1
Checksum:i361F434048B505DF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00089 Genomic DNA. Translation: AAB96235.1.
PIRiS73913.
RefSeqiNP_109933.1. NC_000912.1.
WP_010874602.1. NC_000912.1.

Genome annotation databases

EnsemblBacteriaiAAB96235; AAB96235; MPN_245.
GeneIDi876781.
KEGGimpn:MPN245.
PATRICi20021815. VBIMycPne110_0264.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00089 Genomic DNA. Translation: AAB96235.1.
PIRiS73913.
RefSeqiNP_109933.1. NC_000912.1.
WP_010874602.1. NC_000912.1.

3D structure databases

ProteinModelPortaliP75527.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP75527. 1 interaction.
STRINGi272634.MPN245.

Proteomic databases

PaxDbiP75527.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB96235; AAB96235; MPN_245.
GeneIDi876781.
KEGGimpn:MPN245.
PATRICi20021815. VBIMycPne110_0264.

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiTISIFRI.
OrthoDBiEOG6PZXGQ.

Enzyme and pathway databases

BioCyciMPNE272634:GJ6Z-252-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. "Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae."
    Himmelreich R., Hilbert H., Plagens H., Pirkl E., Li B.-C., Herrmann R.
    Nucleic Acids Res. 24:4420-4449(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 29342 / M129.

Entry informationi

Entry nameiDEF_MYCPN
AccessioniPrimary (citable) accession number: P75527
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: May 27, 2015
This is version 89 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Mycoplasma pneumoniae
    Mycoplasma pneumoniae (strain M129): 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.