title: Variations in the electrostatic landscape of class II human leukocyte antigen molecule induced by modifications in the myelin basic protein peptide: a theoretical approach.
abstract: The receptor-ligand interactions involved in the formation of the complex between Class II Major Histocompatibility Complex molecules and antigenic peptides, which are essential for establishing an adaptive immunological response, were analyzed in the Class II Human Leukocyte Antigen (HLA)--Myelin Basic Protein (MBP) peptide complex (HLA-DRbeta1*1501-MBP) using a multipolar molecular electrostatic potential approach. The Human Leukocyte Antigen--peptide complex system was divided into four pockets together with their respective peptide fragment and the corresponding occupying amino acid was replaced by each of the remaining 19 amino acids. Partial atomic charges were calculated by a quantum chemistry approach at the Hatree Fock/3-21*G level, to study the behavior of monopole, dipole and quadrupole electrostatic multipolar moments. Two types of electrostatic behavior were distinguished in the pockets' amino acids: "anchoring" located in Pocket 1 and 4, and "recognition" located in Pocket 4 and 7. According to variations in the electrostatic landscape, pockets were ordered as: Pocket 1>Pocket 9>>Pocket 4 approximately Pocket 7 which is in agreement with the binding ability reported for Class II Major Histocompatibility Complex pockets. In the same way, amino acids occupying the polymorphic positions beta13R, beta26F, beta28D, beta9W, beta74A, beta47F and beta57D were shown to be key for this Receptor-Ligand interaction. The results show that the multipolar molecular electrostatic potential approach is appropriate for characterizing receptor-ligand interactions in the MHC-antigenic peptide complex, which could have potential implications for synthetic vaccine design.
authors.affiliation: Grupo de Biomatemáticas, Fundación Instituto de Inmunología de Colombia, Bogotá, Colombia.
authors.forename: William A
authors.initials: WA
authors.lastname: Agudelo
authors.forename: Johan F
authors.initials: JF
authors.lastname: Galindo
authors.forename: Marysol
authors.initials: M
authors.lastname: Ortiz
authors.forename: José L
authors.initials: JL
authors.lastname: Villaveces
authors.forename: Edgar E
authors.initials: EE
authors.lastname: Daza
authors.forename: Manuel E
authors.initials: ME
authors.lastname: Patarroyo
mesh_terms: D001665:Binding Sites; D003198:Computer Simulation; D006681:HLA-D Antigens / Q000737:chemistry* / Q000378:metabolism; D008024:Ligands; D008958:Models, Molecular; D008962:Models, Theoretical; D004676:Myelin Basic Protein / Q000737:chemistry* / Q000378:metabolism; D010455:Peptides / Q000737:chemistry / Q000378:metabolism; D055672:Static Electricity
chemical_list: D006681:HLA-D Antigens; D008024:Ligands; D004676:Myelin Basic Protein; D010455:Peptides