I had the same question long ago and I was directed to the Verify3D code, which is also not that easy to read these days. If you receive any feedback, let me know. Perhaps there are also more recent profile-based scores with available code somewhere?
2016-11-14 16:20 GMT-02:00, Hammond, Robert Glenn <rgl...@uab.edu>: > Hi, > > > Does anyone know how to calculate a theoretical or expected Verify 3D score > based on the amino acid sequence length? In the reference papers ( Bowi, et > al., 1991 and Leuthy, et al., 1992) they describe several proteins and their > expected score but do not supply a function for how to calculate an expected > score. I look at example proteins and come up with a ballpark value. Also, I > consult their first table and to get an idea, but I do not have an exact > value for what my Verify 3D would be. > > > Any help is appreciated. Thank you. > > > Regards, > > Robert Hammond >
