[Rdkit-discuss] Constrained conformer generation

2022-12-09 Thread Leon Sun
Hi guys, I recently found the following post by DrrDom: https://github.com/rdkit/rdkit/issues/3266 It is about an improvement to enumerate multiple conformers with a constrained core, as shown in DrrDom's new code. This could be useful in drug design, because people might just want to do a confor

[Rdkit-discuss] Constrained Conformer Generation Question

2022-12-06 Thread Robert Tristan Mercogliano
Hello, I am new to Python RDKit, and I want to make conformers for TMA adsorbed to amorphous SiO2 (see attached), where only trimethylaluminum is altered but the SiO2 substrate is held fixed. I tried using the AllChem.ConstrainedEmbed(molecule, core, etc.) command with useTethers = true, but