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. Author manuscript; available in PMC: 2024 Jul 9.
Published before final editing as: J Chem Theory Comput. 2023 Jan 9:10.1021/acs.jctc.2c00725. doi: 10.1021/acs.jctc.2c00725

Table 3:

Abbreviations and associated forms of the alchemical transformation pathways. Indicated are the form of the dependent weight functions (in terms of smoothstep function SX, where X indicates the order of the smoothstep function); and n, m , α and β parameters of eqs 18 and 19 or n, m, αLJ and αCoul parameters of eqs 20 and 21. All α parameters are unitless, whereas the β parameter has units of Å2. The S2*[2,2,0.5,1] softcore potential differs in functional form from the others, using Eqns 20/21 for the separation-shifted scaling of the effective interaction distance with unitless αLJ and αCoul parameters rather than the more conventional form shown in eqs 18 and 19.

Abbreviation W(λ) n m α/αLJ β/αCoul Eqns. Ref. Comment
S0 Linear S0 - - - - - - Linear mixing/no softcore
S0[6, 2, 0.5, 12] S0 6 2 0.5 12 18/19 24 Default in AMBER18
S0[6, 2, 0.2, 17.3] S0 6 2 0.2 17.3 18/19 57 Modified for improved stability
S2[6, 2, 0.2, 50] S2 6 2 0.2 50 18/19 41 Default in AMBER20
S2*[2, 2, 0.5, 1] S2 2 2 0.5 1.0 20/21 - Present work, new form