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. Author manuscript; available in PMC: 2019 Dec 15.
Published in final edited form as: J Comput Chem. 2018 Dec 15;39(32):2624–2646. doi: 10.1002/jcc.25709

Table 3.

Water interaction energies (IE, kcal mol−1) and minimum-energy distances (r, Å) for 1-methyluracil.

Interaction QM Drude-2013* Drude-2017
IE r IE r ΔIE Δr
N1 oop −0.10 2.34 −1.26 2.24 −1.26 2.24
C2 oop −1.14 2.48 −1.29 2.44 −1.29 2.44
O2 oop −3.82 2.06 −2.69 2.16 −2.69 2.16
O2 180 −4.30 2.02 −3.33 2.10 −3.33 2.10
O2 (N1) −5.07 1.98 −3.65 2.00 −3.65 2.00
O2 (N3) −5.40 1.92 −3.92 1.96 −3.92 1.96
N3 oop −0.99 2.36 −1.24 2.28 −1.24 2.28
H3 180 −4.32 1.91 −4.82 1.86 −4.82 1.86
C4 oop −1.70 2.52 −2.63 2.32 −2.63 2.32
O4 oop −3.81 2.11 −4.35 2.10 −4.35 2.10
O4 180 −4.42 2.02 −4.73 2.05 −4.73 2.05
O4 (N3) −5.90 1.90 −5.84 1.91 −5.84 1.91
O4 (C5) −5.70 1.97 −4.90 2.09 −4.90 2.09
C5 oop −1.49 2.45 −1.17 2.43 −1.17 2.43
H5 180 −1.95 2.26 −1.07 2.58 −1.07 2.58
C6 oop −0.35 2.58 0.37 2.76 0.37 2.76
H6 180 −3.77 2.20 −6.82 2.12 −6.82 2.12
Avg. Diff. (all) −0.14 −0.05 0.05 0.02
Abs. Avg. Diff. (all) 0.89 0.10 0.86 0.09
RMS Diff. (all) 1.15 0.14 1.14 0.12
Avg. Diff. (out-of-plane) −0.13 −0.11 −0.11 −0.02
Abs. Avg. Diff. (out-of-plane) 0.66 0.13 0.65 0.09
RMS Diff. (out-of-plane) 0.77 0.15 0.75 0.11
Avg. Diff. (in-plane) −0.14 0.00 0.19 0.05
Abs. Avg. Diff. (in-plane) 1.09 0.08 1.05 0.08
RMS Diff. (in-plane) 1.35 0.11 1.34 0.12
*

Some values obtained using the Drude-2013 differ from those reported by Baker et al.[66] due to refinement, especially of internal terms, during the course of the development of the Drude-2013 DNA force field.[39,40]