Abstract
When combined, molecular simulations and small-angle scattering experiments are able to provide molecular-scale resolution of structure. Separately, scattering experiments provide only intermingled pair correlations between atoms, while molecular simulations are limited by model quality and the relatively short time scales that they can access. Their combined strength relies on agreement between the experimental spectra and those computed by simulation. To date, computing the neutron spectra from a molecular simulation of a lipid bilayer is straightforward only if the structure is approximated by laterally averaging the in-plane bilayer structure. However, this neglects all information about lateral heterogeneity, e.g., clustering of components in a lipid mixture. This paper presents two methods for computing the scattering intensity of simulated bilayers with in-plane heterogeneity, enabling a full treatment of both the transverse and lateral bilayer structure for the first time. The first method, termed the Dirac Brush, computes the exact spectra including spurious artifacts resulting from using information from neighboring periodic cells to account for the long-range structure of the bilayer. The second method, termed PFFT, applies a mean-field treatment in the field far from a scattering element, resulting in a correlation range that can be tuned (eliminating correlations with neighboring periodic images), but with computational cost that prohibits obtaining the exact (Dirac Brush) spectra. Following their derivation, the two methods are applied to a coarse-grained molecular simulation of a bilayer inhomogeneity, demonstrating the contributions of lateral correlations to the resulting spectra.
Original language | English |
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Pages (from-to) | 5287-5300 |
Number of pages | 14 |
Journal | Journal of Chemical Theory and Computation |
Volume | 16 |
Issue number | 8 |
DOIs | |
State | Published - Aug 11 2020 |
Funding
A.J.S. and M.W.D. were supported by the intramural research program of the Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) of the National Institutes of Health (NIH). Computational resources were provided by the Biowulf high performance computing facility of the NIH, as well as by dedicated resources provided by the NICHD. E.L. was supported by NIH Grant RO1GM120351. F.A.H. was supported by National Science Foundation grant number MCB-1817929. J.K. is supported through the Scientific User Facilities Division of the Department of Energy Office of Science, sponsored by the Basic Energy Science Program, Department of Energy Office of Science, under contract number DEAC05-00OR22725.
Funders | Funder number |
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Basic Energy Science Program | DEAC05-00OR22725 |
National Science Foundation | MCB-1817929 |
National Institutes of Health | RO1GM120351 |
U.S. Department of Energy | |
National Institute of Child Health and Human Development | ZIAHD008955 |
Eunice Kennedy Shriver National Institute of Child Health and Human Development |