Molecular Dynamics of Hemoglobin Reveals Structural Alterations and Explains the Interactions Driving Sickle Cell Fibrillation
journal contributionposted on 2021-08-30, 14:41 authored by Dibyajyoti Maity, Debnath Pal
In sickle cell anemia, deoxyhemoglobin deforms RBCs by forming fibrils inside that disintegrate on oxygenation. We studied 100 ns long all-atom molecular dynamics (MD) for sickle and normal hemoglobin fibril models to understand this process, complemented by multiple 1 μs MD for a single tetramer of sickle and normal hemoglobin in deoxy and oxy states. We find that the presence of hydrophobic residues without a bulky side chain at β-6 in hemoglobin is the reason for the stability of the fibrils. Moreover, the free energy landscapes from MD of hemoglobin starting in the tensed (T) state capture the putative transition from T to relaxed (R) state, associated with oxygen binding. The three conformational wells in the landscapes are characterized by the quaternary changes where one αβ dimer rotates with respect to the other. The conformational changes from the oxygenation of sickle hemoglobin hinder the intermolecular contacts necessary for fibril formation.
intermolecular contacts necessaryhydrophobic residues withoutdeoxyhemoglobin deforms rbcsbulky side chainthree conformational wellssickle cell anemiafree energy landscapesforming fibrils insideatom molecular dynamicssickle hemoglobin hindermolecular dynamicsconformational changessingle tetramerquaternary changesputative transitionoxygen bindingoxy statesnormal hemoglobinhemoglobin startingfibril formation