Thermodynamics of Aβ16-21 dissociation from a fibril: Enthalpy, entropy, and volumetric properties.
Here, we provide insights into the thermodynamic properties of A β16-21 dissociation from an amyloid fibril using all-atom molecular dynamics simulations in explicit water. An umbrella sampling protocol is used to compute potentials of mean force (PMF) as a function of the distance ξ between centers-of-mass of the A β16-21 peptide and the preformed fibril at nine temperatures. Changes in the enthalpy and the entropic energy are determined from the temperature dependence of these PMF(s) and the average volume of the simulation box is computed as a function of ξ. We find that the PMF at 310 K is dominated by enthalpy while the entropic energy does not change significantly during dissociation. The volume of the system decreases during dissociation. Moreover, the magnitude of this volume change also decreases with increasing temperature. By defining dock and lock states using the solvent accessible surface area (SASA), we find that the behavior of the electrostatic energy is different in these two states. It increases (unfavorable) and decreases (favorable) during dissociation in lock and dock states, respectively, while the energy due to Lennard-Jones interactions increases continuously in these states. Our simulations also highlight the importance of hydrophobic interactions in accounting for the stability of A β16-21.
Department of Physics, New Jersey Institute of Technology, Newark, New Jersey, 07102-1982.
Srinivasa
S
Rao Jampani
Department of Physics, New Jersey Institute of Technology, Newark, New Jersey, 07102-1982.
Farbod
F
Mahmoudinobar
Department of Physics, New Jersey Institute of Technology, Newark, New Jersey, 07102-1982.
Zhaoqian
Z
Su
Department of Physics, New Jersey Institute of Technology, Newark, New Jersey, 07102-1982.
Cristiano L
CL
Dias
D016229:Amyloid beta-Peptides / Q000737:chemistry* / Q000378:metabolism*; D010446:Peptide Fragments / Q000737:chemistry* / Q000378:metabolism*; D011487:Protein Conformation; D055672:Static Electricity; D013816:Thermodynamics
D016229:Amyloid beta-Peptides; D010446:Peptide Fragments
enthalpy; entropy; fibril; heat capacity; lock-dock states; proteins; thermal expansion; thermodynamics