A5GQU9 (DEF_SYNR3) 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:	SynRCC307_0355

Organism

Synechococcus sp. (strain RCC307) [Complete proteome] [HAMAP]

Taxonomic identifier

316278 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Cyanobacteria › Oscillatoriophycideae › Chroococcales › Synechococcus

Protein attributes

Sequence length	201 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. HAMAP-Rule MF_00163
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 – 201	201	Peptide deformylase HAMAP-Rule MF_00163		PRO_1000023136
Sites
	Active site	164	1	By similarity
	Metal binding	121	1	Iron By similarity
	Metal binding	163	1	Iron By similarity
	Metal binding	167	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	A5GQU9 [UniParc]. Last modified June 12, 2007. Version 1. Checksum: 62594446FEBFC7CC	FASTA	201	22,242
	10 20 30 40 50 60 MSLNFAAMAR QSERQASTVM VPKGEEQPES PKIHTLGSNE LRKPAKRISK VNEQVRELAR 70 80 90 100 110 120 EMLRSMYAAH GIGLAAPQVG VHQQLLVIDL DPEEAANPPL VLINPEIVAT SGALDTYEEG 130 140 150 160 170 180 CLSIPGVYLN VVRPSQVDVK YRDELGRPQR RKADGLMARC ILHEMDHLNG VLFVDRVSDE 190 200 LSLSGELQRL GFDRNDVKPV A

References

[1]	Genoscope Submitted (MAY-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: RCC307.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CT978603 Genomic DNA. Translation: CAK27258.1.
RefSeq	YP_001226611.1. NC_009482.1.
3D structure databases
ProteinModelPortal	A5GQU9.
ModBase	Search...
Protein-protein interaction databases
STRING	316278.SynRCC307_0355.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	CAK27258; CAK27258; SynRCC307_0355.
GeneID	5156497.
KEGG	syr:SynRCC307_0355.
PATRIC	23821540. VBISynSp108374_0343.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
HOGENOM	HOG000243509.
KO	K01462.
OMA	IQIGVPR.
ProtClustDB	PRK00150.
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_SYNR3

Accession

Primary (citable) accession number: A5GQU9

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	June 12, 2007
Last modified:	May 1, 2013
This is version 39 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program