Describe the chirality conformer generation in the dataset card
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README.md
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## Provenance
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- **`chirality`** is derived from **ChEMBL** (Gaulton et al., 2012)
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stereocenters.
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- **`rotation`** (the geometry dataset) was **generated by the 3DCS authors**. It is a combinatorial library of
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bi-aryl/heteroaryl scaffolds decorated with substituents. RDKit was used for fragment connection, sanitization and
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ETKDG 3D seeding. Each molecule has an xTB relaxed dihedral scan around the inter-ring single bond in 2.5°
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## Provenance
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How each dataset was built:
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- **`chirality`** is derived from **ChEMBL** (Gaulton et al., 2012), using drug-like molecules with annotated
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stereocenters. Their stereoisomers were enumerated with RDKit, embedded with ETKDG and geometry-optimized once
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with `xtb --opt lax`, giving 15,218 stereoisomers with one optimized geometry each. The 52,391 conformers
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released here were derived from those geometries: hydrogens were re-added at RDKit's idealized geometry,
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rotatable bonds were rotated by a small random torsion (median about 10-12 degrees per bond), and isotropic
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Gaussian noise of sigma about 0.09 A was added to every atom. A conformer was kept only if its heavy-atom RMSD
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to every already-accepted conformer of the same stereoisomer exceeded 0.350 A, up to 20 per stereoisomer, so
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stereoisomers with no rotatable bond carry exactly one conformer, as do 34% of the 14,903 stereoisomers overall.
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Every released conformer reproduces the CIP (R/S) assignment of its source geometry, as re-perceived from 3D
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with RDKit.
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- **`rotation`** (the geometry dataset) was **generated by the 3DCS authors**. It is a combinatorial library of
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bi-aryl/heteroaryl scaffolds decorated with substituents. RDKit was used for fragment connection, sanitization and
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ETKDG 3D seeding. Each molecule has an xTB relaxed dihedral scan around the inter-ring single bond in 2.5°
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