Skip to main content
. Author manuscript; available in PMC: 2023 Oct 10.
Published in final edited form as: J Chem Inf Model. 2022 Sep 29;62(19):4713–4726. doi: 10.1021/acs.jcim.2c00758

Table 4:

Performance of recalibrated NMA and acetate models in yielding target binding energies. Target binding energies are taken from a benchmarked vdW-inclusive DFT method. Target energies are divided into two categories. Low field target energies include NMA-NMA, NMA-water and acetate-water dimerization energies as well as binding energies of one acetate with two waters. High field target energies include binding energies of ions with 1–4 NMA and 1–2 acetate molecules. RMSE are estimated with respect to target energies. All energies are in kcal/mol.

Target Orig. Set1 Set2 Set3 Set4 Set5

Low field
NMA-NMA dimer −9.2 −8.6 −7.3 −8.1 −8.1 −8.8 −7.4
Water-NMA dimerl −5.4 −5.2 −4.5 −4.4 −5.9 −5.9 −4.9
Water-NMA dimer2 −8.3 −8.2 −7.3 −7.4 −6.8 −6.9 −7.3
RMSE 0.4 1.3 1.0 1.1 0.9 1.2
Acetate-water −19.7 −17.6 −19.0 −19.0 −19.0 −19.1 −19.0
Acetate-(water)2 −36.5 −33.9 −36.5 −36.5 −36.5 36.5 −36.5
RMSE 2.4 0.5 0.5 0.5 0.4 0.5

High field
Na+(NMA)1 −41.8 −37.3 −42.7 −42.6 −42.9 −42.4 −41.5
Na+(NMA)2 −75.3 −68.3 −75.6 −75.2 −75.4 −74.8 −73.9
Na+(NMA)3 −99.2 −93.1 −100.5 −99.9 −98.8 −99.1 −98.8
Na+(NMA)4 −117.2 −113.2 −120.3 −118.5 −117.3 −117.3 −118.0
RMSE 5.5 1.8 0.8 0.6 0.4 0.8
K+(NMA)1 −32.6 −28.3 −30.4 −31.5 −32.6 −32.4 −32.2
k+(nma)2 −58.0 −52.3 −54.8 −56.0 −57.5 −57.3 −57.6
k+(nma)3 −78.4 −71.9 −74.7 −76.1 −76.8 −77.3 −78.0
k+(nma)4 −93.8 −90.8 −93.4 −94.9 −95.2 −95.5 −96.9
RMSE 5.0 2.7 1.7 1.1 1.1 1.6
Na+(acetate) 1 −148.3 −144.7 −149.3 −149.0 −149.3 −149.8 −149.5
Na+(acetate)2 −198.7 −193.3 −198.9 −198.9 −199.0 −199.5 −199.2
RMSE 4.6 0.7 0.5 0.8 1.1 0.9
K+(acetate)1 −130.7 −130.3 −130.2 −130.1 −130.5 −130.4 −129.8
K+(acetate)2 −174.8 −173.7 −175.3 −175.3 −175.5 −175.5 −175.0
RMSE 0.8 0.5 0.5 0.5 0.5 0.7