Q8G534 (DEF1_BIFLO) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Peptide deformylase 1
Short name=PDF 1
EC=3.5.1.88

Alternative name(s):
Polypeptide deformylase 1

Gene names

Name:	def1
Ordered Locus Names:	BL1186

Organism

Bifidobacterium longum (strain NCC 2705) [Reference proteome] [HAMAP]

Taxonomic identifier

206672 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Actinobacteria › Actinobacteria › Actinobacteridae › Bifidobacteriales › Bifidobacteriaceae › Bifidobacterium › Bifidobacterium longum

Protein attributes

Sequence length	217 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 Reference 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 – 217	217	Peptide deformylase 1 HAMAP-Rule MF_00163		PRO_0000082742
Sites
	Active site	172	1	By similarity
	Metal binding	129	1	Iron By similarity
	Metal binding	171	1	Iron By similarity
	Metal binding	175	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q8G534 [UniParc]. Last modified March 1, 2003. Version 1. Checksum: 52F5B469B6F47163	FASTA	217	24,443
	10 20 30 40 50 60 MFGKNAKVDL ELNRDVEQLI KTGGKEKLLP IVQAGEPVLR QRTVAYNGQL SKRTLAKLID 70 80 90 100 110 120 TMHTTMLEAP GVGLAATQIG LGLALAVVED HVRDDEDDPR EIAEFPFHVI INPSYKPTSD 130 140 150 160 170 180 KTASFYEGCL SFDGYQAVRK RWLDITAEWD DEDGKHHSEP LHGWPARIFQ HETDHLSGEL 190 200 210 YIDRAEIRSL TTNENLEDYW CEDPVPTEAA EELGFAL

References

[1]

"The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract." Schell M.A., Karmirantzou M., Snel B., Vilanova D., Berger B., Pessi G., Zwahlen M.-C., Desiere F., Bork P., Delley M., Pridmore R.D., Arigoni F. Proc. Natl. Acad. Sci. U.S.A. 99:14422-14427(2002) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: NCC 2705.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE014295 Genomic DNA. Translation: AAN24991.1.
RefSeq	NP_696355.1. NC_004307.2.
3D structure databases
ProteinModelPortal	Q8G534.
ModBase	Search...
Protein-protein interaction databases
STRING	206672.BL1186.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAN24991; AAN24991; BL1186.
GeneID	1022716.
KEGG	blo:BL1186.
PATRIC	21118873. VBIBifLon107831_0899.
Phylogenomic databases
eggNOG	COG0242.
HOGENOM	HOG000243508.
KO	K01462.
OMA	AAITVEY.
ProtClustDB	PRK00150.
Enzyme and pathway databases
BioCyc	BLON206672:GI1E-823-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.
ProtoNet	Search...

Entry information

Entry name

DEF1_BIFLO

Accession

Primary (citable) accession number: Q8G534

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	March 1, 2003
Last modified:	May 1, 2013
This is version 55 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program