Q82TW4 (DEF1_NITEU) 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:	NE1755

Organism

Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298) [Complete proteome] [HAMAP]

Taxonomic identifier

228410 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Betaproteobacteria › Nitrosomonadales › Nitrosomonadaceae › Nitrosomonas › Nitrosomonas europaea

Protein attributes

Sequence length	176 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 – 176	176	Peptide deformylase 1 HAMAP-Rule MF_00163		PRO_0000082809
Sites
	Active site	142	1	By similarity
	Metal binding	99	1	Iron By similarity
	Metal binding	141	1	Iron By similarity
	Metal binding	145	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q82TW4 [UniParc]. Last modified June 1, 2003. Version 1. Checksum: EA054FF4D3E63537	FASTA	176	19,421
	10 20 30 40 50 60 MIKPVLKMGD PCLLQPARRV DQFGTPELEA LLQDMQDTMA ALNGAGLAAP QIGVSLQVVI 70 80 90 100 110 120 FGVEHSPRYP DAESVPFTVL INPVLTPLTE QMEEDWEGCL SIPGMRGLVP RYTRLRYQGV 130 140 150 160 170 DAAGASIDRT VTGFHARVVQ HECDHLNGIL YPMRINDLRK FGYTDTLFPG QTIADD

References

[1]

"Complete genome sequence of the ammonia-oxidizing bacterium and obligate chemolithoautotroph Nitrosomonas europaea." Chain P., Lamerdin J.E., Larimer F.W., Regala W., Lao V., Land M.L., Hauser L., Hooper A.B., Klotz M.G., Norton J., Sayavedra-Soto L.A., Arciero D.M., Hommes N.G., Whittaker M.M., Arp D.J. J. Bacteriol. 185:2759-2773(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 19718 / NBRC 14298.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AL954747 Genomic DNA. Translation: CAD85666.1.
RefSeq	NP_841785.1. NC_004757.1.
3D structure databases
ProteinModelPortal	Q82TW4.
ModBase	Search...
Protein-protein interaction databases
STRING	228410.NE1755.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	CAD85666; CAD85666; NE1755.
GeneID	1082707.
KEGG	neu:NE1755.
PATRIC	22714752. VBINitEur56163_1968.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
HOGENOM	HOG000243508.
KO	K01462.
OMA	LYPMRIN.
ProtClustDB	PRK00150.
Enzyme and pathway databases
BioCyc	NEUR228410:GJNO-1786-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

DEF1_NITEU

Accession

Primary (citable) accession number: Q82TW4

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	June 1, 2003
Last modified:	May 1, 2013
This is version 60 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program