Reviewed, UniProtKB/Swiss-Prot Q8NQ46 (DEF1_CORGL)

Names and origin

Protein names

Recommended name:
    Peptide deformylase 1
      Short name=PDF 1
    EC=3.5.1.88
Alternative name(s):
    Polypeptide deformylase 1

Gene names

Name:	def1
Ordered Locus Names:	Cgl1601, cg1804

Organism

Corynebacterium glutamicum (Brevibacterium flavum) [Complete proteome] [HAMAP]

Taxonomic identifier

1718 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Corynebacterineae › Corynebacteriaceae › Corynebacterium

Protein attributes

Sequence length	169 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 – 169	169	Peptide deformylase 1 HAMAP MF_00163		PRO_0000082774
Sites
	Active site	136	1	By similarity
	Metal binding	93	1	Iron By similarity
	Metal binding	135	1	Iron By similarity
	Metal binding	139	1	Iron By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q8NQ46-1 [UniParc]. Last modified October 1, 2002. Version 1. Checksum: CD962574BFB74329	FASTA	169	18,543
	10 20 30 40 50 60 MAVREVRLFG DPVLVSRADE VVDFDESLST LIDDMFDTME DAGGVGLAAN QVGVLRRVFV 70 80 90 100 110 120 FDTSHQEGGL RGHVINPVWE PLTEDTQTGK EGCLSIPDVS AETTRYETVR LSGQDRDGNP 130 140 150 160 VGFVANGLLA RCIQHETDHL DGVLFLKRLD PAERKAAMGV IRASAWFNK

References

[1]

"Complete genomic sequence of Corynebacterium glutamicum ATCC 13032." Nakagawa S. Submitted (MAY-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.

[2]

"The complete Corynebacterium glutamicum ATCC 13032 genome sequence and its impact on the production of L-aspartate-derived amino acids and vitamins." Kalinowski J., Bathe B., Bartels D., Bischoff N., Bott M., Burkovski A., Dusch N., Eggeling L., Eikmanns B.J., Gaigalat L., Goesmann A., Hartmann M., Huthmacher K., Kraemer R., Linke B., McHardy A.C., Meyer F., Moeckel B. , Pfefferle W., Puehler A., Rey D.A., Rueckert C., Rupp O., Sahm H., Wendisch V.F., Wiegraebe I., Tauch A. J. Biotechnol. 104:5-25(2003) [PubMed: 12948626] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025.

Cross-references

Sequence databases
EMBLGenBankDDBJ	BA000036 Genomic DNA. Translation: BAB98994.1. BX927152 Genomic DNA. Translation: CAF21609.1.
RefSeq	NP_600815.1. YP_225885.1.
3D structure databases
HSSP	HSSP built from PDB template 1N5N based on UniProtKB Q9I7A8.
ModBase	Search...
Genome annotation databases
GeneID	1019569. 3343555.
GenomeReviews	Gene locus Cgl1601 in contig BA000036_GR. Gene locus cg1804 in contig BX927147_GR.
KEGG	cgb:cg1804. cgl:NCgl1539.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	Q8NQ46.
OMA	MAIRRIC.
Enzyme and pathway databases
BioCyc	CGLU196627-1:CG1804-MON.
BRENDA	3.5.1.88. 812.
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

DEF1_CORGL

Accession

Primary (citable) accession number: Q8NQ46

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 25, 2002
Last sequence update:	October 1, 2002
Last modified:	November 3, 2009
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)