C5BKQ0 (DEF_TERTT) 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:	TERTU_0037

Organism

Teredinibacter turnerae (strain ATCC 39867 / T7901) [Complete proteome] [HAMAP]

Taxonomic identifier

377629 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Alteromonadales › Alteromonadales genera incertae sedis › Teredinibacter › Teredinibacter turnerae

Protein attributes

Sequence length	168 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 – 168	168	Peptide deformylase HAMAP-Rule MF_00163		PRO_1000203608
Sites
	Active site	135	1	By similarity
	Metal binding	92	1	Iron By similarity
	Metal binding	134	1	Iron By similarity
	Metal binding	138	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	C5BKQ0 [UniParc]. Last modified July 28, 2009. Version 1. Checksum: B731999ECB4E3647	FASTA	168	19,400
	10 20 30 40 50 60 MALLPILEFP DARLRTVAKP VEQVDERVRA IIDDMFETMY DAPGIGLAAT QVNVHEQIIV 70 80 90 100 110 120 IDISENHDEP LVFINPRIDV LDETLFDYEE GCLSVPGFYE EVTRPRHVRV TALNRDGEEF 130 140 150 160 VLEPEGLLAV CIQHEIDHLK GKLFVDYVSN IKRQRIRKKL EKQHKERA

References

[1]

"The complete genome of Teredinibacter turnerae T7901: an intracellular endosymbiont of marine wood-boring bivalves (shipworms)." Yang J.C., Madupu R., Durkin A.S., Ekborg N.A., Pedamallu C.S., Hostetler J.B., Radune D., Toms B.S., Henrissat B., Coutinho P.M., Schwarz S., Field L., Trindade-Silva A.E., Soares C.A.G., Elshahawi S., Hanora A., Schmidt E.W., Haygood M.G. , Posfai J., Benner J., Madinger C., Nove J., Anton B., Chaudhary K., Foster J., Holman A., Kumar S., Lessard P.A., Luyten Y.A., Slatko B., Wood N., Wu B., Teplitski M., Mougous J.D., Ward N., Eisen J.A., Badger J.H., Distel D.L. PLoS ONE 4:E6085-E6085(2009) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 39867 / T7901.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001614 Genomic DNA. Translation: ACR11844.1.
RefSeq	YP_003071733.1. NC_012997.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	377629.TERTU_0037.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ACR11844; ACR11844; TERTU_0037.
GeneID	8212092.
KEGG	ttu:TERTU_0037.
PATRIC	23867343. VBITerTur118718_0034.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0242.
HOGENOM	HOG000243509.
KO	K01462.
OMA	EMDQYQE.
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_TERTT

Accession

Primary (citable) accession number: C5BKQ0

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 22, 2009
Last sequence update:	July 28, 2009
Last modified:	May 1, 2013
This is version 30 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program