I assume you mean, “are they already implemented”. There is a class “GenBornEnergy” and a class “PoissonBoltzmannEnergy”, so it looks like both are. The name for the method weights (in a scorefunction weights file) appears to be “gb_elec” and “PB_elec”, respectively.
They are likely to be very slow compared to the default solvation model. I’m reasonably certain both are in good working order but I’ve never tried them.
Another thing to keep in mind is that, because of the need for short-range, pairwise decomposable energy functions for efficient use in most of Rosetta’s protocols, the “Generalized Born” and/or the “Poisson Boltzmann” implementations in Rosetta may or may not match (or even be close to) standard GB/PB implementations in, for example, conventional Molecular Dynamics programs. Caveat experimentor.
I think our GB and PB are reasonably close to correct – I think they’re just not pairwise decomposable, and thus can’t be used in packing and are very slow. I’ve asked Yifan for comment – I’m told he’s working on making them work with packing. (Or, given geography, is that what Yifan told you?)
“There isn’t a PB implementation in Rosetta. I put something in to call APBS externally and then read the potential file in. But it’s not used generally for scoring.
As for GB, last I heard, there might still be a bug in it. Jim Havranek would have a good idea of what the status is. Also the GB scoring term is only for the pairwise interaction. I don’t think the solvation term is implemented, but I could be wrong.
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