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Regarding gradient descent optimization over the global free energy of the entire protein structure, the CASP13 animated gif paints quite a picture. Have we eve
by ArtWomb 8y ago
Regarding gradient descent optimization over the global free energy of the entire protein structure, the CASP13 animated gif paints quite a picture. Have we ever seen anything with that degree of fidelity before?
Ability to do this at scale could mean protein folding is effectively "solved" and we can move onto the next phases of computational design in systems biology. Namely: protein interaction prediction, design of antibodies, vaccines, novel assemblies, and on and on.
There are >100K molecules in the Protein Data Bank. With new ones added everyday. But folding and interaction data is opaque. If immediate predictions could be made that will in turn create a feedback loop informing design.
Actually pretty excited about the implications for Zero-G protein factories. Pharmaceutical companies could be a commercial driver for space based protein crystal fabs.
The coming of age of de novo protein design
https://www.nature.com/articles/nature19946 https://www.nature.com/articles/nature19946
- natechols 8y agoMany researchers have already moved on to the next phases, because those are ultimately far more useful problems than the pure guesswork of CASP contests. Of course better prediction tools will mean better designs too, but the existing tools were already powerful enough to yield some pretty impressive non-natural designs.