pdb2pqr icon indicating copy to clipboard operation
pdb2pqr copied to clipboard

Using pKa-ANI to compute titration states at a given pH?

Open sastrys1 opened this issue 1 year ago • 2 comments

In a recent paper by Gokcan and Isayev, they developed a new model using representation learning built on ANI (a learned way to quickly compute the environment around a given atom) and was able to outperform propka.

I was wondering if you would be interested in me adding pka-ANI as a command line option to assign titration states? This would be useful for me personally so I will probably do it anyway but I wanted to know if it would be useful to the community.

Screen Shot 2024-02-20 at 11 12 01 AM

sastrys1 avatar Feb 20 '24 19:02 sastrys1

For clarity, pka-ANI operates on a PDB file with atom coordinates just like propka does so it seems like plugging in pka-ANI to the existing propka code and adding that as a command line option is not super hard. pka-ANI probably would take more time though.

sastrys1 avatar Feb 20 '24 19:02 sastrys1

Yes, this sounds very useful. Please submit a PR!

sobolevnrm avatar Feb 21 '24 04:02 sobolevnrm