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Protein

Peptide deformylase

Gene

def

Organism
Mycoplasma penetrans (strain HF-2)
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)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi113 – 1131IronUniRule annotation
Metal bindingi157 – 1571IronUniRule annotation
Active sitei158 – 1581UniRule annotation
Metal bindingi161 – 1611IronUniRule annotation

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

BioCyciMPEN272633:GJBP-591-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:MYPE5650
OrganismiMycoplasma penetrans (strain HF-2)
Taxonomic identifieri272633 [NCBI]
Taxonomic lineageiBacteriaTenericutesMollicutesMycoplasmataceaeMycoplasma
ProteomesiUP000002522: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 186186Peptide deformylasePRO_0000082802Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi272633.MYPE5650.

Structurei

3D structure databases

ProteinModelPortaliQ8EVJ8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243507.
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.

Q8EVJ8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFKKLDPSPK WIVYDNNPVM HKPIEDVVFP LTKEDEHVIS QMLSYVDASY
60 70 80 90 100
EGEADKYDIR AGIGIAAIQL GCPKKIIYIH LDDKNGEHKY LMANPKIIKE
110 120 130 140 150
STSKMYLKNG EGCLSVKKDH KGLSIRKSIV WVKGIDLFTN KEIEVKATDL
160 170 180
LAACFQHEVD HNNNKFYYNR INESDPYYVE KNWEEI
Length:186
Mass (Da):21,541
Last modified:March 1, 2003 - v1
Checksum:iD6E65F8052B19B16
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000026 Genomic DNA. Translation: BAC44355.1.
RefSeqiNP_757951.1. NC_004432.1.

Genome annotation databases

EnsemblBacteriaiBAC44355; BAC44355; BAC44355.
GeneIDi1041435.
KEGGimpe:MYPE5650.
PATRICi20020280. VBIMycPen56664_0576.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000026 Genomic DNA. Translation: BAC44355.1.
RefSeqiNP_757951.1. NC_004432.1.

3D structure databases

ProteinModelPortaliQ8EVJ8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272633.MYPE5650.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC44355; BAC44355; BAC44355.
GeneIDi1041435.
KEGGimpe:MYPE5650.
PATRICi20020280. VBIMycPen56664_0576.

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243507.
KOiK01462.
OMAiTISIFRI.
OrthoDBiEOG6PZXGQ.

Enzyme and pathway databases

BioCyciMPEN272633:GJBP-591-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. "The complete genomic sequence of Mycoplasma penetrans, an intracellular bacterial pathogen in humans."
    Sasaki Y., Ishikawa J., Yamashita A., Oshima K., Kenri T., Furuya K., Yoshino C., Horino A., Shiba T., Sasaki T., Hattori M.
    Nucleic Acids Res. 30:5293-5300(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: HF-2.

Entry informationi

Entry nameiDEF_MYCPE
AccessioniPrimary (citable) accession number: Q8EVJ8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2003
Last sequence update: March 1, 2003
Last modified: March 4, 2015
This is version 72 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. 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.