Reviewed, UniProtKB/Swiss-Prot Q5WFA2 (DEF_BACSK)

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:	ABC2423

Organism

Bacillus clausii (strain KSM-K16) [Complete proteome] [HAMAP]

Taxonomic identifier

66692 [NCBI]

Taxonomic lineage

Bacteria › Firmicutes › Bacillales › Bacillaceae › Bacillus

Protein attributes

Sequence length	183 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
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.
Catalytic activity	Formyl-L-methionyl peptide + H2O = formate + methionyl peptide. HAMAP MF_00163
Cofactor	Binds 1 Fe2+ ion By similarity.
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: HAMAP
Molecular function	iron ion binding Inferred from electronic annotation. Source: UniProtKB-KW 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 – 183	183	Peptide deformylase HAMAP MF_00163		PRO_0000301002
Sites
	Active site	154	1	By similarity
	Metal binding	110	1	Iron By similarity
	Metal binding	153	1	Iron By similarity
	Metal binding	157	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q5WFA2-1 [UniParc]. Last modified November 23, 2004. Version 1. Checksum: 8A3009F0269B3B8F	FASTA	183	20,388
	10 20 30 40 50 60 MITMDDIVRE GNPILRKVAE PVELPLTDED KQTLVDMLEF IKNSQDPEIA EKYGLRPGVG 70 80 90 100 110 120 LAAPQIGISK RLFAIHATDE NGNLYSMGIA NPKVVSHSVE TNELENGEGC LSVDRDVPGL 130 140 150 160 170 180 VPRRARLTIT GVDHEGNDVR MRLRGYIAIV FQHELDHLDG IMFYDRIEGL EDPFKKPLPG FAL

References

[1]	"The complete genome sequence of the alkaliphilic Bacillus clausii KSM-K16." Takaki Y., Kageyama Y., Shimamura S., Suzuki H., Nishi S., Hatada Y., Kawai S., Ito S., Horikoshi K. Submitted (OCT-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	AP006627 Genomic DNA. Translation: BAD64958.1.
RefSeq	YP_175919.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	Q5WFA2.
Genome annotation databases
GeneID	3201620.
GenomeReviews	Gene locus ABC2423 in contig AP006627_GR.
KEGG	bcl:ABC2423.
NMPDR	fig|66692.3.peg.2110.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q5WFA2.
OMA	DDSKPLE.
Enzyme and pathway databases
BioCyc	BCLA66692:ABC2423-MON.
Family and domain databases
HAMAP	MF_00163. [Tree]
InterPro	IPR000181. Fmet_deformylase. [Graphical view]
Gene3D	G3DSA:3.90.45.10. Fmet_deformylase. 1 hit.
PANTHER	PTHR10458. Fmet_deformylase. 1 hit.
Pfam	PF01327. Pep_deformylase. 1 hit. [Graphical view]
PIRSF	PIRSF004749. Pep_def. 1 hit.
PRINTS	PR01576. PDEFORMYLASE.
ProDom	PD003844. Fmet_deformylase. 1 hit. [Graphical view] [Entries sharing at least one domain]
TIGRFAMs	TIGR00079. pept_deformyl. 1 hit.
ProtoNet	Search...

Entry information

Entry name

DEF_BACSK

Accession

Primary (citable) accession number: Q5WFA2

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 11, 2007
Last sequence update:	November 23, 2004
Last modified:	November 3, 2009
This is version 32 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)