Filtered neighbors threading.

  title={Filtered neighbors threading.},
  author={Jadwiga R. Bienkowska and Robert G. Rogers and Temple F. Smith},
  volume={37 3},
We present a knowledge-based threading scoring function that exploits the information about protein structure contained in residue packing/neighbor preferences. The proposed algorithm eliminates the stereochemically improbable physical contacts for each possible sequence-to-structure alignment. We use this algorithm to "filter" the score of the sequence-to-structure alignment. Filtering is dynamic, in the sense that the set of neighbor pairs contributing to the alignment score varies during… CONTINUE READING