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CCC comments on Thoughts on the Singularity Institute (SI) - Less Wrong
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Protein folding models must be inaccurate if they are NP-hard. Reality itself is not known to be able to solve NP-hard problems.
Google has pointed me to an article describing an algorithm that can apparently predict folded protein shapes pretty quickly (a few minutes on a single laptop).
Original paper here. From a quick glance, it looks like it's only effective for certain types of protein chains.
That too. Even NP-hard problems are often easy if you get the choice of which one to solve.