Evidence map›Paper›PMID 32579370›Full record

ArticleJournal of chemical theory and computation2020

Laterally Resolved Small-Angle Scattering Intensity from Lipid Bilayer Simulations: An Exact and a Limited-Range Treatment.

Mitchell W Dorrell, Frederick A Heberle, John Katsaras, Lutz Maibaum, Edward Lyman, Alexander J Sodt

Abstract read
In one paragraph

Article in Journal of chemical theory and computation, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. SANS Spectra with PLUMED: Implementation and Application to Metainference.Journal of chemical information and modeling · 2023
    Article
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Mitchell W DorrellEunice Kennedy Shriver National Institute of Child Health and Human Development, Bethesda, Maryland 20892, United States.
John KatsarasNeutron Scattering Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37830, United States.
Lutz MaibaumDepartment of Chemistry, University of Washington, Seattle, Washington 98195, United States.ORCID http://orcid.org/0000-0002-3516-8415
Alexander J SodtEunice Kennedy Shriver National Institute of Child Health and Human Development, Bethesda, Maryland 20892, United States.ORCID http://orcid.org/0000-0002-5570-8212

Funding

Molecular simulations of lipid curvature stress and its effect on transmembrane proteinsZIAHD008955 · NICHD · EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH & HUMAN DEVELOPMENT · PI SODT, ALEXANDER · 2016 to 2025
$6.2M
Effects of lipidomic diversity on GPCRR01GM120351 · NIGMS · UNIVERSITY OF DELAWARE · PI LYMAN, EDWARD RAY · 2017 to 2021
$1.6M
NIGMS NIH HHS R01 GM120351
6 · The paper itself

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.

Identifiers

PMID32579370
PMCPMC7587404

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.