4.7 Article

Lipid14: The Amber Lipid Force Field

期刊

JOURNAL OF CHEMICAL THEORY AND COMPUTATION
卷 10, 期 2, 页码 865-879

出版社

AMER CHEMICAL SOC
DOI: 10.1021/ct4010307

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资金

  1. Institute of Chemical Biology
  2. UK Biotechnology and Biological Sciences Research Council (BBSRC)
  3. GlaxoSmithKline
  4. NIH [T32 GM008326]
  5. NVIDIA Graduate Fellowship Program
  6. University of California Institute for Mexico
  7. United States (UC MEXUS)
  8. Consejo Nacional de Ciencia y Tecnologia de Mexico (CONACYT)
  9. Strategic Programme for International Research and Education (SPIRE)
  10. Meltzer Foundation
  11. NSF [NSF-1047875, 1148276]
  12. University of California (UC Lab) [09-LR-06-117793]
  13. NSF XSEDE program
  14. NVIDIA, Inc.
  15. Engineering and Physical Sciences Research Council [EP/K039946/1] Funding Source: researchfish
  16. Office of Advanced Cyberinfrastructure (OAC)
  17. Direct For Computer & Info Scie & Enginr [1148276] Funding Source: National Science Foundation
  18. EPSRC [EP/K039946/1] Funding Source: UKRI

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The AMBER lipid force field has been updated to create Lipid14, allowing tensionless simulation of a number of lipid types with the AMBER MD package. The modular nature of this force field allows numerous combinations of head and tail groups to create different lipid types, enabling the easy insertion of new lipid species. The Leonard-Jones and torsion-parameters of both the head and tail groups have been revised and updated partial charges calculated. The force field has been validated by simulating bilayers of six different lipid types for a total of 0.5 mu s each without applying a surface tension; with favorable comparison to experiment for properties such as area per lipid, volume per lipid, bilayer thickness, NMR order parameters, scattering data, and lipid lateral diffusion. As the derivation of this force field is consistent with the AMBER development philosophy, Lipid14 is compatible with the AMBER protein, nucleic acid, carbohydrate, and small molecule force fields.

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