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Macromolecular structure analysis

Conservation, Variability and the Modeling of Active Protein Kinases

James D. R. Knight, Bin Qian, David Baker, Rashmi Kothary

Mammalian MicroRNA Prediction through a Support Vector Machine Model of Sequence and Structure

Ying Sheng, Pär G. Engström, Boris Lenhard

Prediction of RNA Pseudoknots Using Heuristic Modeling with Mapping and Sequential Folding

Wayne K. Dawson, Kazuya Fujiwara, Gota Kawai

Early Evolution of Ionotropic GABA Receptors and Selective Regimes Acting on the Mammalian-Specific Theta and Epsilon Subunits

Christopher J. Martyniuk, Stéphane Aris-Brosou, [ ... ], Vance L. Trudeau

Automated Builder and Database of Protein/Membrane Complexes for Molecular Dynamics Simulations

Sunhwan Jo, Taehoon Kim, Wonpil Im

An All-Atom Model of the Chromatin Fiber Containing Linker Histones Reveals a Versatile Structure Tuned by the Nucleosomal Repeat Length

Hua Wong, Jean-Marc Victor, Julien Mozziconacci

Preference of Small Molecules for Local Minimum Conformations when Binding to Proteins

Qi Wang, Yuan-Ping Pang

A Framework for Exploring Functional Variability in Olfactory Receptor Genes

Orna Man, David C. Willhite, [ ... ], Yoav Gilad

A Modern Mode of Activation for Nucleic Acid Enzymes

Dominique Lévesque, Francis P. Brière, Jean-Pierre Perreault

HIV-Specific Probabilistic Models of Protein Evolution

David C. Nickle, Laura Heath, [ ... ], Sergei L. Kosakovsky Pond

The Stability and Formation of Native Proteins from Unfolded Monomers Is Increased through Interactions with Unrelated Proteins

Claudia Rodríguez-Almazán, Francisco J. Torner, [ ... ], Armando Gómez Puyou

Structural Insights into the Evolution of a Non-Biological Protein: Importance of Surface Residues in Protein Fold Optimization

Matthew D. Smith, Matthew A. Rosenow, [ ... ], John C. Chaput

Calculation of the Free Energy and Cooperativity of Protein Folding

Alex Kentsis, Tatyana Gindin, Mihaly Mezei, Roman Osman

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