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. 2021 Feb 10;8:55. doi: 10.1038/s41597-021-00833-x

Table 1.

Summary information for the DES370K, DES15K, and DES5M databases.

Database Protocol Monomers Dimers Groups Dimer geometries
DES370K Dimer scans based on QM optimizationa 166 3,436 3,476 97,368
Dimer scans based on MD configurationsb 382 466 6,133 166,914
Homodimer single points based on MD configurationsc 91 91 910 42,201
Heterodimer single points based on MD configurationsd 261 261 2,150 64,476
Total 392 3,691 12,669 370,959
DES15K (subset of DES370K) Dimer scans based on QM optimizationa 159 3,052 3,052 12,183
Dimer scans based on MD configurationsb 137 206 1,929 2,468
Total 159 3,052 4,981 14,651
DES5M Dimer scans based on QM optimizationa 153 2,826 71,847 2,404,926
Dimer scans based on MD configurationsb 159 328 47,648 1,646,832
Homodimer single points based on MD configurationsc 138 138 12,983 464,951
Heterodimer single points based on MD configurationsd 163 163 14,641 439,229
Total 206 2,967 147,119 4,955,938

For each database, we list the protocols employed to generate particular subsets of the data, counts associated with those subsets, and the total count across subsets. The counts shown are the number of chemically distinct monomer types (“Monomers”); the number of chemically distinct dimer types (“Dimers”); the number of groups (“Groups”), where a group is a set of connected calculations, such as those from a radial profile under a dimer-scan protocol or those from a single MD frame under a single-point protocol; and the total number of dimer calculations (i.e., entries in the database) (“Dimer geometries”).

aReference dimer geometries were identified using QM optimization and used to construct a group of radial scan–based geometries.

bReference dimer geometries were extracted from MD simulations of neat liquids and solvated monomers and used to construct a group of radial scan–based geometries.

cReference multimer geometries were extracted from MD simulations of neat liquids and decomposed into a group of single-point dimer geometries.

dReference multimer geometries were extracted from MD simulations of solvated monomers and decomposed into a group of single-point dimer geometries.