title: Comparative study of Plasmodium falciparum erythrocyte membrane protein 1-DBLα domain variants with respect to antigenic variations and docking interaction analysis with glycosaminoglycans.
abstract: The variant surface antigen PfEMP1 (Plasmodium falciparum erythrocyte membrane protein 1) encoded by the polymorphic multi-copy var gene family plays an important role in parasite biology and the host-parasite interactions. Sequestration and antigenic variation is an essential component in the survival and pathogenesis of Plasmodium falciparum and contributes to chronic infection. The DBLα domain of PfEMP1 is a potential target for immuno-epidemiological studies and has been visualized as a vaccine candidate against severe malaria. Specific host receptors like heparin, heparan sulphate, blood group A and complement receptor 1 have been reported to bind the DBLα domain. Although heparin has been experimentally shown to disrupt the parasite-host interaction and effectively disrupt rosetting, the binding sites for the DBLα domain and the mechanism behind heparin-mediated rosette inhibition have not been elucidated. In this study, 3D structures and epitopes of the DBLα domain in 3D7 and in two Indian isolates have been predicted and compared. We have carried out docking studies on DBLα domains with human GAG receptors (heparin and heparan sulphate) to predict the strength of association between the protein-ligand interactions. The DBLα domain structures showed extensive diversity and polymorphism in their binding sites. The docking results indicate that heparin binds more effectively with high affinity as compared to heparan sulphate with some common interacting residues. These common residues can play an important role in rosetting and will aid in the designing of inhibitors specific to the interactions between DBLα and heparin or heparan sulphate would be important in malaria treatment. Thus it may lead to the development of novel interference strategies to block red blood cell invasion and provide protection against malaria.
authors.affiliation: Bioinformatics Centre & Department of Zoology, Center of Advanced Studies, University of Pune, Pune 411007, India. deepti.deobagkar@gmail.com.
authors.forename: Megha R
authors.initials: MR
authors.lastname: Agrawal
authors.forename: Aarti D
authors.initials: AD
authors.lastname: Ozarkar
authors.forename: Shipra
authors.initials: S
authors.lastname: Gupta
authors.forename: Dileep N
authors.initials: DN
authors.lastname: Deobagkar
authors.forename: Deepti D
authors.initials: DD
authors.lastname: Deobagkar
mesh_terms: D000595:Amino Acid Sequence; D000940:Antigenic Variation / Q000235:genetics*; D001665:Binding Sites / Q000235:genetics; D006025:Glycosaminoglycans / Q000378:metabolism*; D006493:Heparin / Q000378:metabolism; D006497:Heparan Sulfate / Q000378:metabolism; D006790:Host-Parasite Interactions / Q000235:genetics; D006801:Humans; D008565:Membrane Proteins / Q000235:genetics / Q000378:metabolism; D062105:Molecular Docking Simulation / Q000379:methods; D008969:Molecular Sequence Data; D010963:Plasmodium falciparum / Q000235:genetics* / Q000378:metabolism; D011485:Protein Binding / Q000235:genetics; D017434:Protein Structure, Tertiary / Q000235:genetics*; D015800:Protozoan Proteins / Q000235:genetics* / Q000378:metabolism
chemical_list: D006025:Glycosaminoglycans; D006493:Heparin; D006497:Heparan Sulfate; D008565:Membrane Proteins; D015800:Protozoan Proteins; C085731:erythrocyte membrane protein 1, Plasmodium falciparum