Q9ZL51 (DEF_HELPJ) 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:	jhp_0729

Organism

Helicobacter pylori (strain J99) (Campylobacter pylori J99) [Complete proteome] [HAMAP]

Taxonomic identifier

85963 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › delta/epsilon subdivisions › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter › Helicobacter pylori

Protein attributes

Sequence length	174 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 – 174	174	Peptide deformylase HAMAP-Rule MF_00163		PRO_0000082791
Sites
	Active site	139	1	By similarity
	Metal binding	96	1	Iron By similarity
	Metal binding	138	1	Iron By similarity
	Metal binding	142	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q9ZL51 [UniParc]. Last modified May 1, 1999. Version 1. Checksum: 8C6B1A45F53A7BBB	FASTA	174	20,163
	10 20 30 40 50 60 MALLEIIHYP SKILRTISKE VVSFDSKLHQ QLDDMHETMI ASEGIGLAAI QVGLPLRMLI 70 80 90 100 110 120 INLPQEDGVQ HKEDCLEIIN PKWIETKGSI MYREGCLSVP GFYEEVERFE KVKIEYQNRF 130 140 150 160 170 AEVKILEASE LLAVAIQHEI DHLNGVLFVD KLSILKRKKF EKELKELQKK QKHK

References

[1]

"Genomic sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacter pylori." Alm R.A., Ling L.-S.L., Moir D.T., King B.L., Brown E.D., Doig P.C., Smith D.R., Noonan B., Guild B.C., deJonge B.L., Carmel G., Tummino P.J., Caruso A., Uria-Nickelsen M., Mills D.M., Ives C., Gibson R., Merberg D. , Mills S.D., Jiang Q., Taylor D.E., Vovis G.F., Trust T.J. Nature 397:176-180(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: J99.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE001439 Genomic DNA. Translation: AAD06310.1.
PIR	G71895.
RefSeq	NP_223447.1. NC_000921.1.
3D structure databases
ProteinModelPortal	Q9ZL51.
SMR	Q9ZL51. Positions 2-167.
ModBase	Search...
Protein-protein interaction databases
STRING	85963.jhp0729.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAD06310; AAD06310; jhp_0729.
GeneID	890168.
KEGG	hpj:jhp0729.
PATRIC	20606181. VBIHelPyl98156_0796.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
KO	K01462.
OMA	LEIIHYP.
ProtClustDB	PRK00150.
Enzyme and pathway databases
BioCyc	HPYL85963:GJB9-741-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_HELPJ

Accession

Primary (citable) accession number: Q9ZL51

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	May 1, 1999
Last modified:	May 1, 2013
This is version 84 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program