Q5LEQ9 (DEF_BACFN) 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:	BF1691

Organism

Bacteroides fragilis (strain ATCC 25285 / NCTC 9343) [Complete proteome] [HAMAP]

Taxonomic identifier

272559 [NCBI]

Taxonomic lineage

Bacteria › Bacteroidetes › Bacteroidia › Bacteroidales › Bacteroidaceae › Bacteroides

Protein attributes

Sequence length	184 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 MF_00163
Catalytic activity	Formyl-L-methionyl peptide + H2O = formate + methionyl peptide. HAMAP MF_00163
Cofactor	Binds 1 Fe2+ ion By similarity. HAMAP MF_00163
Sequence similarities	Belongs to the polypeptide deformylase family.

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: UniProtKB-KW
Molecular function	iron ion binding Inferred from electronic annotation. Source: InterPro peptide deformylase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 184	184	Peptide deformylase HAMAP MF_00163		PRO_0000301004
Sites
	Active site	141	1	By similarity
	Metal binding	98	1	Iron By similarity
	Metal binding	140	1	Iron By similarity
	Metal binding	144	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q5LEQ9 [UniParc]. Last modified June 21, 2005. Version 1. Checksum: 1191336370789D37	FASTA	184	21,101
	10 20 30 40 50 60 MILPIYVYGQ PVLRQVAEDI TVDYPNLKEL IENMFETMDH ADGVGLAAPQ IGLPIRVVVI 70 80 90 100 110 120 NLDVLSEDYP EYKDFRKAYI NAHIDVVEGE EVSMEEGCLS LPGIHESVKR GSKIHVRYMD 130 140 150 160 170 180 ENFVEHNEVV EGFLARVMQH EFDHLDGKMF IDHISPLRKQ MIKGKLNTML KGKARSSYKM KQVK

References

[1]

"Extensive DNA inversions in the B. fragilis genome control variable gene expression." Cerdeno-Tarraga A.-M., Patrick S., Crossman L.C., Blakely G., Abratt V., Lennard N., Poxton I., Duerden B., Harris B., Quail M.A., Barron A., Clark L., Corton C., Doggett J., Holden M.T.G., Larke N., Line A., Lord A. , Norbertczak H., Ormond D., Price C., Rabbinowitsch E., Woodward J., Barrell B.G., Parkhill J. Science 307:1463-1465(2005) [PubMed: 15746427] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 25285 / NCTC 9343.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CR626927 Genomic DNA. Translation: CAH07391.1.
RefSeq	YP_211329.1. NC_003228.3.
3D structure databases
HSSP	HSSP built from PDB template 1V3Y based on UniProtKB P43522.
ProteinModelPortal	Q5LEQ9.
ModBase	Search...
Protein-protein interaction databases
STRING	Q5LEQ9.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	3285455.
GenomeReviews	Gene locus BF1691 in contig CR626927_GR.
KEGG	bfs:BF1691.
PATRIC	21039805. VBIBacFra29119_1650.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
HOGENOM	HBG665227.
OMA	MINAHIE.
ProtClustDB	PRK00150.
Enzyme and pathway databases
BioCyc	BFRA272559:BF1691-MONOMER.
Family and domain databases
HAMAP	MF_00163. Pep_deformylase. [Tree]
InterPro	IPR000181. Fmet_deformylase. IPR023635. Peptide_deformylase. [Graphical view]
Gene3D	G3DSA:3.90.45.10. Fmet_deformylase. 1 hit.
KO	K01462.
PANTHER	PTHR10458. Fmet_deformylase. 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_BACFN

Accession

Primary (citable) accession number: Q5LEQ9

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 11, 2007
Last sequence update:	June 21, 2005
Last modified:	January 25, 2012
This is version 41 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program