A1KFQ1 (DEF_MYCBP) 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:	BCG_0468c

Organism

Mycobacterium bovis (strain BCG / Pasteur 1173P2) [Complete proteome] [HAMAP]

Taxonomic identifier

410289 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Actinobacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Corynebacterineae › Mycobacteriaceae › Mycobacterium › Mycobacterium tuberculosis complex › Mycobacterium bovis › Mycobacterium bovis BCG

Protein attributes

Sequence length	197 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.

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 – 197	197	Peptide deformylase HAMAP-Rule MF_00163		PRO_0000301057
Sites
	Active site	149	1	By similarity
	Metal binding	106	1	Iron By similarity
	Metal binding	148	1	Iron By similarity
	Metal binding	152	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	A1KFQ1 [UniParc]. Last modified February 6, 2007. Version 1. Checksum: 14F2F655EDF01C93	FASTA	197	20,939
	10 20 30 40 50 60 MAVVPIRIVG DPVLHTATTP VTVAADGSLP ADLAQLIATM YDTMDAANGV GLAANQIGCS 70 80 90 100 110 120 LRLFVYDCAA DRAMTARRRG VVINPVLETS EIPETMPDPD TDDEGCLSVP GESFPTGRAK 130 140 150 160 170 180 WARVTGLDAD GSPVSIEGTG LFARMLQHET GHLDGFLYLD RLIGRYARNA KRAVKSHGWG 190 VPGLSWLPGE DPDPFGH

References

[1]

"Genome plasticity of BCG and impact on vaccine efficacy." Brosch R., Gordon S.V., Garnier T., Eiglmeier K., Frigui W., Valenti P., Dos Santos S., Duthoy S., Lacroix C., Garcia-Pelayo C., Inwald J.K., Golby P., Garcia J.N., Hewinson R.G., Behr M.A., Quail M.A., Churcher C., Barrell B.G., Parkhill J., Cole S.T. Proc. Natl. Acad. Sci. U.S.A. 104:5596-5601(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: BCG / Pasteur 1173P2.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AM408590 Genomic DNA. Translation: CAL70453.1.
RefSeq	YP_976566.1. NC_008769.1.
3D structure databases
ProteinModelPortal	A1KFQ1.
SMR	A1KFQ1. Positions 2-197.
ModBase	Search...
Protein-protein interaction databases
STRING	410289.BCG_0468c.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	CAL70453; CAL70453; BCG_0468c.
GeneID	4696950.
KEGG	mbb:BCG_0468c.
PATRIC	18011453. VBIMycBov80988_0506.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
HOGENOM	HOG000243508.
KO	K01462.
OMA	LIGRWKR.
ProtClustDB	PRK00150.
Enzyme and pathway databases
BioCyc	MBOV410289:GJW7-474-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...
Other
BindingDB	A1KFQ1.

Entry information

Entry name

DEF_MYCBP

Accession

Primary (citable) accession number: A1KFQ1

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 11, 2007
Last sequence update:	February 6, 2007
Last modified:	May 1, 2013
This is version 46 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program