Anti-DNA antibody prefers damaged dsDNA over native

The vast majority of antibodies to DNA circulating in the blood of patients and healthy subjects are not associated with any pathologic manifestations and are non-pathogenic. Only a subset of antibodies to DNA circulating in the blood of patients are pathogenic because they are associated with one of the most common complications of systemic lupus erythematosus (SLE) known as the "lupus" glomerulonephritis, a kidney damage followed by renal dysfunction

The researchers of Kazan Federal University, Moscow Institute of Physics and Technology, and the University of Pennsylvania used Molecular Dynamic simulations of bimolecular complexes of a segment of dsDNA with a monoclonal anti-DNA antibody's Fab-fragment to obtain detailed structural and physical characteristics of the dynamic intermolecular interactions of DNA with anti-DNA antibodies. The computer-based Molecular Dynamics (MD) simulation plays an increasingly important role, as it "revives" crystallographic protein structures and provides information not available by other means about their moving parts and intra- and intermolecular interactions. Using a computationally modified crystal structure of a Fab-DNA complex, the authors studied in silico equilibrium Molecular Dynamics of the Fab-fragment associated with two homologous dsDNA fragments, containing or not containing dimerized thymine, a product of DNA photodamage. An important role that anti-DNA antibodies play in the pathogenesis of autoimmune diseases, including SLE, is related to the properties of modified or abnormal DNA formed in these pathological conditions.

The aggregate of data obtained shows that the highly specific recognition and stability of DNA-containing immune complexes are governed primarily by the amino acid composition of both light and heavy polypeptide chains, by the number and location of the aromatic amino acid residues, and the geometry of the antigen. The findings provide a mechanistic insight into formation and properties of the pathogenic anti-DNA antibodies in autoimmune diseases, such as SLE, associated with skin photosensibilization (increased sensitivity of the skin and mucosa to the light and UV radiation), which may lead to UV-induced DNA damage, causing the exposure of polynucleotide autoantigens. Elucidation of structural mechanisms of an antigen recognition and interaction of anti-DNA antibodies provides a basis for understanding the role of DNA-containing immune complexes in human pathologies and for new treatments.