Reviewed, UniProtKB/Swiss-Prot A1UUB4 (DEF_BARBK)

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:	BARBAKC583_1319

Organism

Bartonella bacilliformis (strain ATCC 35685 / KC583) [Complete proteome] [HAMAP]

Taxonomic identifier

360095 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bartonellaceae › Bartonella

Protein attributes

Sequence length	182 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
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.
Catalytic activity	Formyl-L-methionyl peptide + H2O = formate + methionyl peptide. HAMAP 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: 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 – 182	182	Peptide deformylase HAMAP MF_00163		PRO_0000301006
Sites
	Active site	143	1	By similarity
	Metal binding	100	1	Iron By similarity
	Metal binding	142	1	Iron By similarity
	Metal binding	146	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	A1UUB4-1 [UniParc]. Last modified February 6, 2007. Version 1. Checksum: 3B275816BCEBF800	FASTA	182	20,739
	10 20 30 40 50 60 MPIKPLVILP DPILREISKP VEHIDSTIQQ LADDMLETMY NAGGIGLAAI QVGIPLRMLV 70 80 90 100 110 120 VDVSIFTSIF EPDAPQDPII VINPEILWLS DERNICMEGC LSIPGYSAEV ERPKRLCIRY 130 140 150 160 170 180 RNREGEQKEI EADNILATCL QHEIDHLNGC LFIDHLSKVK RNMVIRKFEK RAKENNLEKE IL

References

[1]

Hendrix L., Mohamoud Y., Radune D., Shvartsbeyn A., Daugherty S., Dodson R., Durkin A.S., Harkins D., Huot H., Kothari S.P., Madupu R., Li J., Nelson W.C., Shrivastava S., Giglio M.G., Haft D., Selengut J., Fraser-Ligget C., Seshadri R. Submitted (DEC-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBLGenBankDDBJ	CP000524 Genomic DNA. Translation: ABM44951.1.
RefSeq	YP_989567.1.
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4684713.
GenomeReviews	Gene locus BARBAKC583_1319 in contig CP000524_GR.
KEGG	bbk:BARBAKC583_1319.
NMPDR	fig|360095.3.peg.101.
TIGR	BARBAKC583_1319.
Phylogenomic databases
OMA	A1UUB4. LETMYNA.
Family and domain databases
HAMAP	MF_00163. [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.
ProDom	PD003844. Fmet_deformylase. 1 hit. [Graphical view] [Entries sharing at least one domain]
TIGRFAMs	TIGR00079. pept_deformyl. 1 hit.
ProtoNet	Search...

Entry information

Entry name

DEF_BARBK

Accession

Primary (citable) accession number: A1UUB4

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 11, 2007
Last sequence update:	February 6, 2007
Last modified:	June 16, 2009
This is version 16 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)