[phenixbb] phenix eLBOW and phosphorous stereochemistry

Xavier Brazzolotto xavier.brazzolotto at chemdef.fr
Thu Jun 11 11:11:22 PDT 2020

Dear all,

I use phenix.elbow in order to generate mol2 files that will then be used in a docking process through autodock/vina.

I am facing a strange issue. While using a SMILES string bearing stereochemistry at a desired phosphorous atom as eLBOW input file, the correct stereochemistry is not respected in the output files.
While giving PR or PR compound, I always end up with the very same enantiomer…

Maybe eLBOW does not handle the phosphorous specific stereochemistry ?

Many thanks

Xavier Brazzolotto, PhD

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