B8E0X7 (DEF_DICTD) 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:	Dtur_1440

Organism

Dictyoglomus turgidum (strain Z-1310 / DSM 6724)

Taxonomic identifier

515635 [NCBI]

Taxonomic lineage

Bacteria › Dictyoglomi › Dictyoglomales › Dictyoglomaceae › Dictyoglomus

Protein attributes

Sequence length	153 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 Reference proteome
Gene Ontology (GO)
Biological process	translation Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	iron ion binding Inferred from electronic annotation. Source: InterPro peptide deformylase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 153	153	Peptide deformylase HAMAP MF_00163		PRO_1000200725
Sites
	Active site	130	1	By similarity
	Metal binding	87	1	Iron By similarity
	Metal binding	129	1	Iron By similarity
	Metal binding	133	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	B8E0X7 [UniParc]. Last modified March 3, 2009. Version 1. Checksum: 8E70201301634A77	FASTA	153	17,293
	10 20 30 40 50 60 MIMEIRKIGD PILKIKAKKV EKIDEKVKNL VRDMIETMKF SNGVGLAAPQ VGESLRIIVV 70 80 90 100 110 120 DYEENPIAFI NPEILEMDGE VLDYEGCLSV PGVEVPIKRA ERIIFKAQDL QGRTKRYKAK 130 140 150 GLLARVIQHE VDHLEGILIL DRAVEESTLA EEK

References

[1]

"Complete sequence of Dictyoglomus turgidum DSM 6724." US DOE Joint Genome Institute Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Mead D. Submitted (DEC-2008) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Z-1310 / DSM 6724.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001251 Genomic DNA. Translation: ACK42714.1.
RefSeq	YP_002353328.1. NC_011661.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	B8E0X7.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	7081875.
GenomeReviews	Gene locus Dtur_1440 in contig CP001251_GR.
KEGG	dtu:Dtur_1440.
PATRIC	21811680. VBIDicTur93964_1487.
Phylogenomic databases
HOGENOM	HBG665227.
OMA	RITKVDE.
PhylomeDB	B8E0X7.
ProtClustDB	CLSK2409592.
Family and domain databases
HAMAP	MF_00163. Pep_deformylase. [Tree]
InterPro	IPR000181. Fmet_deformylase. IPR023635. Peptide_deformylase. [Graphical view]
Gene3D	G3DSA:3.90.45.10. Fmet_deformylase. 1 hit.
KO	K01462.
PANTHER	PTHR10458. Fmet_deformylase. 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_DICTD

Accession

Primary (citable) accession number: B8E0X7

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 28, 2009
Last sequence update:	March 3, 2009
Last modified:	January 25, 2012
This is version 24 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program