Structural basis for the design of antibiotics targeting peptide deformylase.Hao, B., Gong, W., Rajagopalan, P.T., Zhou, Y., Pei, D., Chan, M.K.
(1999) Biochemistry 38: 4712-4719
- PubMed: 10200158
- DOI: 10.1021/bi982594c
- Primary Citation of Related Structures:
- PubMed Abstract:
- Crystal Structure of the Escherichia Coli Peptide Deformylase
Chan, M.K., Gong, W., Rajagopalan, P.T., Hao, B., Tsai, C., Pei, D.
(1997) Biochemistry 36: 13904
While protein synthesis in bacteria begins with a formylated methionine, the formyl group of the nascent polypeptide is removed by peptide deformylase. Since eukaryotic protein synthesis does not involve formylation and deformylation at the N-terminu ...
While protein synthesis in bacteria begins with a formylated methionine, the formyl group of the nascent polypeptide is removed by peptide deformylase. Since eukaryotic protein synthesis does not involve formylation and deformylation at the N-terminus, there has been increasing interest in peptide deformylase as a potential target for antibacterial chemotherapy. Toward this end and to aid in the design of effective antibiotics targeting peptide deformylase, the structures of the protein-inhibitor complexes of both the cobalt and the zinc containing Escherichia coli peptide deformylase bound to the transition-state analogue, (S)-2-O-(H-phosphonoxy)-L-caproyl-L-leucyl-p-nitroanilide (PCLNA), have been determined. The proteins for both deformylase-inhibitor complexes show basically the same fold as for the native enzyme. The PCLNA inhibitor adopts an extended conformation and fits nicely into a hydrophobic cavity located near the metal site. On the basis of these structures, guidelines for the design of high-affinity deformylase inhibitors are suggested. As our results show that the protein residues which interact with the PCLNA inhibitor are conserved over a wide variety of species, we suggest that antibiotics targeting deformylase could have wide applicability.
Departments of Biochemistry and Chemistry, The Ohio State University, 484 West 12th Avenue, Columbus, Ohio 43210, USA.