Protein–Protein Docking with Backbone Flexibility

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Protein–Protein Docking with Simultaneous Optimization of Rigid-body Displacement and Side-chain Conformations

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Native protein sequences are close to optimal for their structures

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Protein flexibility predictions using graph theory

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CAPRI: A Critical Assessment of PRedicted Interactions

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Cyclic coordinate descent: A robotics algorithm for protein loop closure

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Protein Flexibility in Ligand Docking and Virtual Screening to Protein Kinases

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Torsion angle dynamics: Reduced variable conformational sampling enhances crystallographic structure refinement

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A protein–protein docking benchmark

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Modeling structurally variable regions in homologous proteins with rosetta

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Flexible protein–protein docking

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Combining local-structure, fold-recognition, and new fold methods for protein structure prediction

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Conformational changes associated with protein–protein interactions

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Improved side‐chain modeling for protein–protein docking

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Geometry‐based flexible and symmetric protein docking

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Bacterial Polypeptide Release Factor RF2 Is Structurally Distinct from Eukaryotic eRF1

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Soft protein–protein docking in internal coordinates

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Internal Coordinates for Molecular Dynamics and Minimization in Structure Determination and Refinement

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The Relationship between the Flexibility of Proteins and their Conformational States on Forming Protein–Protein Complexes with an Application to Protein–Protein Docking

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Progress and challenges in high‐resolution refinement of protein structure models

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New Methodology for Computer-Aided Modelling of Biomolecular Structure and Dynamics 1. Non-Cyclic Structures

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Protein–protein docking: is the glass half-full or half-empty?

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Progress in protein–protein docking: Atomic resolution predictions in the CAPRI experiment using RosettaDock with an improved treatment of side‐chain flexibility

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Accounting for loop flexibility during protein–protein docking

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The targets of CAPRI rounds 6–12

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Structural Characterization and Comparative Phylogenetic Analysis of Escherichia coli HemK, a Protein (N5)-glutamine Methyltransferase

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RosettaDock in CAPRI rounds 6–12

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The targets of CAPRI rounds 3–5

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Structure, Orientation, and Conformational Changes in Transmembrane Domains of Multidrug Transporters

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