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[Amber] 各位老师如何评价Amber22?

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Amber22的主要更新如下:
  • Major extensions for alchemical free energy calculations using soft-core potentials, and some advanced lambda scheduling options. New ability to use SHAKE with TI.
  • REST2-like enhanced sampling.
  • Methods for studying protein-protein interactions using Gaussian accelerated MD (PPI-GaMD).
  • Updates to self-guided Langevin dynamics, using both momentum and force guiding factors; new connections to the canonical ensemble.
  • Kernel Modified MD allows on-the-fly updates to forcefields based on training configurations.
  • Support in pmemd and mdgx for more types of "extra points".
AmberTools22的主要更新如下:

  • New and updated forcefields:
    • Lipid21 major update for lipids
    • Polarizable water model, OPC3-pol
    • New parameters for some fluorinated amino acids
  • Quick package for Hartree-Fock and DFT electronic stucture calculations, with GPU support. Quick is integrated into sander for QM/MM simulations, and AmberTools22 contains significant performance improvements, a new geometry optimizer, and support for spin-unrestricted calculations.
  • The 3D-RISM code now supports periodic boundaries, and has improved performance and scaling for open boundaries
  • Detailed changelog for cpptraj. Changes include GIST improvements, new cluster analysis, and a "prepareforleap" script with support for carbohydrates.
  • The PyRESP program supports RESP fitting for both additive and polariable force fields.
  • New constant pressure protocols for the Amber pGM polarizable force field.



相对于Amber20,又无必要升级?这个Quick目前如何?看着似乎在QM/MM计算速度上有较大提升。
另外我在手册中看到有一章是写机器学习的,但十分简略,还不清楚amber未来是否会进一步支持机器学习力场的应用。

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发表于 Post on 2022-5-12 21:45:14 | 只看该作者 Only view this author
I think if you don't need one of the new characteristic of amber you can work fine with amber20

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发表于 Post on 2022-5-13 09:20:21 | 只看该作者 Only view this author
Polarizable water model, OPC3-pol这个感觉有待测试,不管速度还是准确性(相对于目前普遍使用的非极化水模型)

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