Improving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8.

@article{Krieger2009ImprovingPR,
  title={Improving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8.},
  author={Elmar Krieger and Keehyoung Joo and Jinwoo Lee and Jooyoung Lee and Srivatsan Raman and James Thompson and Mike Tyka and David Baker and Kevin Karplus},
  journal={Proteins},
  year={2009},
  volume={77 Suppl 9},
  pages={114-22}
}
A correct alignment is an essential requirement in homology modeling. Yet in order to bridge the structural gap between template and target, which may not only involve loop rearrangements, but also shifts of secondary structure elements and repacking of core residues, high-resolution refinement methods with full atomic details are needed. Here, we describe four approaches that address this "last mile of the protein folding problem" and have performed well during CASP8, yielding physically… CONTINUE READING
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The other 90 % of the protein : Assessment beyond the Calphas for CASP 8 templatebased models

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The other 90% of the protein: Assessment beyond the Calphas for CASP8 template-based models. Proteins 2009;77(Suppl 9):29–49

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