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Using ProteinMPNN *without* oxygens?

Open gian-marco-visani-dyno opened this issue 5 months ago • 0 comments

Hi, I noticed that if I run ProteinMPNN on backbones without the oxygens, the model does not break; however, the designs look very different with vs. without the addition of oxygens. My question is: should I expect the designs made without oxygens to be non-sensical? if this is true, then I wonder why the model doesn't throw an error instead.

gian-marco-visani-dyno avatar Jul 31 '25 15:07 gian-marco-visani-dyno