P47352 (DEF_MYCGE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Peptide deformylase
Short name=PDF
EC=3.5.1.88

Alternative name(s):
Polypeptide deformylase

Gene names

Name:	def
Ordered Locus Names:	MG106

Organism

Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195) [Complete proteome] [HAMAP]

Taxonomic identifier

243273 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Tenericutes › Mollicutes › Mycoplasmatales › Mycoplasmataceae › Mycoplasma › Mycoplasma genitalium

Protein attributes

Sequence length	216 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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. HAMAP-Rule MF_00163
Catalytic activity	Formyl-L-methionyl peptide + H2O = formate + methionyl peptide. HAMAP-Rule MF_00163
Cofactor	Binds 1 Fe2+ ion By similarity.
Sequence similarities	Belongs to the polypeptide deformylase family.
Sequence caution	The sequence AAC71324.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Protein biosynthesis
Ligand	Iron Metal-binding
Molecular function	Hydrolase
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	translation Inferred from electronic annotation. Source: HAMAP
Molecular_function	iron ion binding Inferred from electronic annotation. Source: InterPro peptide deformylase activity Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 216	216	Peptide deformylase HAMAP-Rule MF_00163		PRO_0000082801
Sites
	Active site	179	1	By similarity
	Metal binding	134	1	Iron By similarity
	Metal binding	178	1	Iron By similarity
	Metal binding	182	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	P47352 [UniParc]. Last modified November 1, 1997. Version 2. Checksum: 52D22E8FA58BEFC5	FASTA	216	25,171
	10 20 30 40 50 60 MTKILPWLFT SIVRIILTLL FLSMTFQPTK TWLVFDDNAL INKPTEAVNF PIDEQIETCI 70 80 90 100 110 120 KKMIAYVDAS YDGKAQEYDI IPGIGIAANQ IGYWKQLFYI HLNDLNKEKK CLLINPKIID 130 140 150 160 170 180 QSENKAFLES GEGCLSVKKQ HKGYVIRSEW ITIKGYDWFE KKEITIKATG LFGMCLQHEF 190 200 210 DHLQGRFFYQ RINPLNPWFK KPEWKVINPT LKTSNG

References

[1]

"The minimal gene complement of Mycoplasma genitalium." Fraser C.M., Gocayne J.D., White O., Adams M.D., Clayton R.A., Fleischmann R.D., Bult C.J., Kerlavage A.R., Sutton G.G., Kelley J.M., Fritchman J.L., Weidman J.F., Small K.V., Sandusky M., Fuhrmann J.L., Nguyen D.T., Utterback T.R., Saudek D.M. , Phillips C.A., Merrick J.M., Tomb J.-F., Dougherty B.A., Bott K.F., Hu P.-C., Lucier T.S., Peterson S.N., Smith H.O., Hutchison C.A. III, Venter J.C. Science 270:397-403(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 33530 / G-37 / NCTC 10195.

Cross-references

Sequence databases
EMBL GenBank DDBJ	L43967 Genomic DNA. Translation: AAC71324.1. Different initiation.
RefSeq	NP_072768.2. NC_000908.2.
3D structure databases
ProteinModelPortal	P47352.
ModBase	Search...
Protein-protein interaction databases
STRING	243273.MG_106.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAC71324; AAC71324; MG_106.
GeneID	875270.
KEGG	mge:MG_106.
PATRIC	20009616. VBIMycGen98045_0117.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
KO	K01462.
OMA	GYVIRSE.
ProtClustDB	PRK00150.
Enzyme and pathway databases
BioCyc	MGEN243273:GH2R-148-MONOMER.
Family and domain databases
Gene3D	3.90.45.10. 1 hit.
HAMAP	MF_00163. Pep_deformylase.
InterPro	IPR000181. Fmet_deformylase. IPR023635. Peptide_deformylase. [Graphical view]
PANTHER	PTHR10458. PTHR10458. 1 hit.
Pfam	PF01327. Pep_deformylase. 1 hit. [Graphical view]
PIRSF	PIRSF004749. Pep_def. 1 hit.
PRINTS	PR01576. PDEFORMYLASE.
SUPFAM	SSF56420. Fmet_deformylase. 1 hit.
TIGRFAMs	TIGR00079. pept_deformyl. 1 hit.
ProtoNet	Search...

Entry information

Entry name

DEF_MYCGE

Accession

Primary (citable) accession number: P47352

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1996
Last sequence update:	November 1, 1997
Last modified:	May 1, 2013
This is version 87 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program