title: Computational analysis, structural modeling and ligand binding site prediction of Plasmodium falciparum 1-deoxy-d-xylulose-5-phosphate synthase.
abstract: Malaria remains one of the most serious infectious diseases in the world. There are five human species of the Plasmodium genus, of which Plasmodium falciparum is the most virulent and responsible for the vast majority of malaria related deaths. The unique biochemical processes that exist in Plasmodium falciparum provide a useful way to develop novel inhibitors. One such biochemical pathway is the methyl erythritol phosphate pathway (MEP), required to synthesize isoprenoid precursors. In the present study, a detailed computational analysis has been performed for 1-deoxy-d-xylulose-5-phosphate synthase, a key enzyme in MEP. The protein is found to be stable and residues from 825 to 971 are highly conserved across species. The homology model of the enzyme is developed using three web-based servers and Modeller software. It has twelve disordered regions indicating its druggability. Virtual screening of ZINC database identifies ten potential compounds in thiamine diphosphate binding region of the enzyme.
authors.affiliation: Department of Physiology, Krishnagar Govt. College, Krishnagar, Nadia, West Bengal, India. Electronic address: achintya02@gmail.com.
authors.forename: Achintya Mohan
authors.initials: AM
authors.lastname: Goswami
mesh_terms: D000595:Amino Acid Sequence; D005075:Biological Evolution; D008024:Ligands; D008958:Models, Molecular; D010963:Plasmodium falciparum / Q000201:enzymology*; D017433:Protein Structure, Secondary; D014166:Transferases / Q000737:chemistry* / Q000378:metabolism
chemical_list: D008024:Ligands; D014166:Transferases; C109461:deoxyxylulose-5-phosphate synthase
keywords: 1-Deoxy-d-xylulose-5-phosphate synthase; Apicoplast; Homology modeling; In silico; Methyl erythritol phosphate pathway; Plasmodium falciparum