References

[biasini2013]

Biasini M, Schmidt T, Bienert S, Mariani V, Studer G, Haas J, Johner N, Schenk AD, Philippsen A and Schwede T (2013). OpenStructure: an integrated software framework for computational structural biology. Acta Cryst.

[canutescu2003]

Canutescu AA and Dunbrack RL Jr. (2003). Cyclic coordinate descent: A robotics algorithm for protein loop closure. Protein Sci.

[canutescu2003b]

Canutescu AA, Shelenkov AA, Dunbrack RL Jr. (2003). A graph-theory algorithm for rapid protein side-chain prediction. Protein Sci.

[coutsias2005]

Coutsias EA, Seok C, Wester MJ, Dill KA (2005). Resultants and loop closure. International Journal of Quantum Chemistry.

[chakravarty1999]

Chakravarty S, Varadarajan R (1999). Residue depth: a novel parameter for the analysis of protein structure and stability. Structure.

[davis2006]

Davis IW, Arendall WB, Richardson DC, Richardson JS (2006). The backrub motion: how protein backbone shrugs when a sidechain dances. Structure.

[goldstein1994]

Goldstein RF (1994). Efficient rotamer elimination applied to protein side-chains and related spin glasses. Biophys J.

[Jones1999]

Jones DT (1999). Protein secondary structure prediction based on position-specific scoring matrices. J. Mol. Biol.

[kabsch1983]

Kabsch W, Sander C (1983). Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers.

[krivov2009]

Krivov GG, Shapovalov MV and Dunbrack RL Jr. (2009). Improved prediction of protein side-chain conformations with SCWRL4. Proteins.

[leach1998]

Leach AR, Lemon AP (1998). Exploring the conformational space of protein side chains using dead-end elimination and the A* algorithm. Proteins.

[nussinov1991]

Nussinov R and Wolfson HJ (1991). Efficient detection of three-dimensional structural motifs in biological macromolecules by computer vision techniques. PNAS.

[shapovalov2011]

Shapovalov MV and Dunbrack RL Jr. (2011). A smoothed backbone-dependent rotamer library for proteins derived from adaptive kernel density estimates and regressions. Structure.

[soding2005]

Söding J (2005). Protein homology detection by HMM-HMM comparison. Bioinformatics.

[solis2006]

Solis AD, Rackovsky S (2006). Improvement of statistical potentials and threading score functions using information maximization. Proteins.

[trott2010]

Trott O, Olson AJ (2010). AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization and multithreading. J Comput Chem

[zhou2005]

Zhou H, Zhou Y (2005). Fold Recognition by Combining Sequence Profiles Derived From Evolution and From Depth-Dependent Structural Alignment of Fragments. Proteins.

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