- Integrating statistical pair potentials into protein complex prediction
- Journal Article
- J. Mintseris, B. Pierce, K. Wiehe, R. Anderson, R. Chen, Z. Weng. Proteins: Structure, Function and Bioinformatics, 69, 511-520. Published in 2007.
The biophysical study of protein–
protein interactions and docking
has important implications in our
understanding of most complex cellular signaling processes. Most
computational approaches to protein
docking involve a tradeoff between the level of detail incorporated into the model and computational power required to properly handle that level of detail. In this work, we seek to optimize that balance by showing that we can reduce the complexity of model representation and thus make the computation tractable with minimal loss of predictive performance. We also introduce a pair-wise statistical potential suitable for docking that builds on previous work and show that this potential can be incorporated into our fast fourier transform-based
docking algorithm ZDOCK. We use the Protein Docking Benchmark to illustrate the improved performance of this potential compared with less detailed other scoring functions. Furthermore, we show that the new potential performs well on antibody-antigen complexes, with most predictions clustering around the
Complementarity Determining Regions of antibodies without any manual intervention.
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- Information last updated: Sun Oct 7 2007
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