Fragment-HMM: a new approach to protein structure prediction.

  title={Fragment-HMM: a new approach to protein structure prediction.},
  author={Shuai Cheng Li and Dongbo Bu and Jinbo Xu and Ming Li},
  journal={Protein science : a publication of the Protein Society},
  volume={17 11},
We designed a simple position-specific hidden Markov model to predict protein structure. Our new framework naturally repeats itself to converge to a final target, conglomerating fragment assembly, clustering, target selection, refinement, and consensus, all in one process. Our initial implementation of this theory converges to within 6 A of the native structures for 100% of decoys on all six standard benchmark proteins used in ROSETTA (discussed by Simons and colleagues in a recent paper… CONTINUE READING
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