Reviewed, UniProtKB/Swiss-Prot Q7V5F9 (DEF2_PROMM)

Names and origin

Protein names

Recommended name:
    Peptide deformylase 2
      Short name=PDF 2
    EC=3.5.1.88
Alternative name(s):
    Polypeptide deformylase 2

Gene names

Name:	def2
Ordered Locus Names:	PMT_1601

Organism

Prochlorococcus marinus (strain MIT 9313) [Complete proteome] [HAMAP]

Taxonomic identifier

74547 [NCBI]

Taxonomic lineage

Bacteria › Cyanobacteria › Prochlorophytes › Prochlorococcaceae › Prochlorococcus

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 MF_00163
Catalytic activity	Formyl-L-methionyl peptide + H2O = formate + methionyl peptide. HAMAP MF_00163
Cofactor	Binds 1 Fe2+ ion By similarity. HAMAP 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: UniProtKB-KW 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 2 HAMAP MF_00163		PRO_0000082817
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)
	Q7V5F9-1 [UniParc]. Last modified October 1, 2003. Version 1. Checksum: F8E336410A3AEC3E	FASTA	201	22,311
	10 20 30 40 50 60 MARSFAQLAR TAEKTKGSVA VPKEPLDHPP LQIHTLGNGV LRQSTRRIGK VDESVRDLVR 70 80 90 100 110 120 DMLRSMYAAK GIGLAAPQVG IHKQLLVLDL DLETPTTPPV VLINPEIISS SATVETYEEG 130 140 150 160 170 180 CLSIPGVYLN VVRPSEIVLS FRDEMGRPRK MKADGLMARC IQHEMDHLEG VLFVDRVTDE 190 200 NELSLELKEH GFKRADVRPL V

References

[1]

"Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation." Rocap G., Larimer F.W., Lamerdin J.E., Malfatti S., Chain P., Ahlgren N.A., Arellano A., Coleman M., Hauser L., Hess W.R., Johnson Z.I., Land M.L., Lindell D., Post A.F., Regala W., Shah M., Shaw S.L., Steglich C. , Sullivan M.B., Ting C.S., Tolonen A., Webb E.A., Zinser E.R., Chisholm S.W. Nature 424:1042-1047(2003) [PubMed: 12917642] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	BX548175 Genomic DNA. Translation: CAE21776.1.
RefSeq	NP_895428.1.
3D structure databases
SMR	Q7V5F9. Positions 31-181.
ModBase	Search...
Protein-protein interaction databases
STRING	Q7V5F9.
Genome annotation databases
GeneID	1728260.
GenomeReviews	Gene locus PMT_1601 in contig BX548175_GR.
KEGG	pmt:PMT1601.
NMPDR	fig|74547.1.peg.1595.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
HOGENOM	HBG665227.
OMA	RITKVDE.
Enzyme and pathway databases
BioCyc	PMAR74547:PMT1601-MONOMER.
Family and domain databases
HAMAP	MF_00163. Pep_deformylase. [Tree]
InterPro	IPR000181. Fmet_deformylase. [Graphical view]
Gene3D	G3DSA:3.90.45.10. Fmet_deformylase. 1 hit.
PANTHER	PTHR10458. Fmet_deformylase. 1 hit.
Pfam	PF01327. Pep_deformylase. 1 hit. [Graphical view]
PIRSF	PIRSF004749. Pep_def. 1 hit.
PRINTS	PR01576. PDEFORMYLASE.
TIGRFAMs	TIGR00079. pept_deformyl. 1 hit.
ProtoNet	Search...

Entry information

Entry name

DEF2_PROMM

Accession

Primary (citable) accession number: Q7V5F9

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 2003
Last sequence update:	October 1, 2003
Last modified:	February 9, 2010
This is version 39 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)