Table 1.
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.