Design of Protein Multi-specificity Using an Independent Sequence Search Reduces the Barrier to Low Energy Sequences

Improved Stability and Half-Life of Fluorinated Phosphotriesterase Using Rosetta

(2014) Ching-Yao Yang et al.   CHEMBIOCHEM

Small-molecule ligand docking into comparative models with Rosetta

(2013) Steven A Combs et al.   Nature Protocols

Improvements to Robotics-Inspired Conformational Sampling in Rosetta

(2013) Amelie Stein et al.   PLoS One

Improving the accuracy of protein stability predictions with multistate design using a variety of backbone ensembles

(2013) James A. Davey et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Understanding Thermal Adaptation of Enzymes through the Multistate Rational Design and Stability Prediction of 100 Adenylate Kinases

(2013) Stanley C. Howell et al.   STRUCTURE

Human Germline Antibody Gene Segments Encode Polyspecific Antibodies

(2013) Jordan R. Willis et al.   PLoS Computational Biology

Structure-Based Design of Supercharged, Highly Thermoresistant Antibodies

(2012) Aleksandr E. Miklos et al.   CHEMISTRY & BIOLOGY

Control of protein signaling using a computationally designed GTPase/GEF orthogonal pair

(2012) G. T. Kapp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RosettaScripts: A Scripting Language Interface to the Rosetta Macromolecular Modeling Suite

(2011) Sarel J. Fleishman et al.   PLoS One

A Generic Program for Multistate Protein Design

(2011) Andrew Leaver-Fay et al.   PLoS One

Predicting the Tolerated Sequences for Proteins and Protein Interfaces Using RosettaBackrub Flexible Backbone Design

(2011) Colin A. Smith et al.   PLoS One

A Neutralizing Antibody Selected from Plasma Cells That Binds to Group 1 and Group 2 Influenza A Hemagglutinins

(2011) D. Corti et al.   SCIENCE

SPRINT: side-chain prediction inference toolbox for multistate protein design

(2010) Menachem Fromer et al.   BIOINFORMATICS

Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs

(2010) Justin Ashworth et al.   NUCLEIC ACIDS RESEARCH

Experimental library screening demonstrates the successful application of computational protein design to large structural ensembles

(2010) B. D. Allen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Computational Design of an Enzyme Catalyst for a Stereoselective Bimolecular Diels-Alder Reaction

(2010) J. B. Siegel et al.   SCIENCE

Improving the species cross-reactivity of an antibody using computational design

(2009) Christopher J. Farady et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Backbone flexibility in computational protein design

(2009) Daniel J Mandell et al.   CURRENT OPINION IN BIOTECHNOLOGY

Design of protein-interaction specificity gives selective bZIP-binding peptides

(2009) Gevorg Grigoryan et al.   NATURE

Antibody Recognition of a Highly Conserved Influenza Virus Epitope

(2009) D. C. Ekiert et al.   SCIENCE

Tradeoff Between Stability and Multispecificity in the Design of Promiscuous Proteins

(2009) Menachem Fromer et al.   PLoS Computational Biology

Backrub-Like Backbone Simulation Recapitulates Natural Protein Conformational Variability and Improves Mutant Side-Chain Prediction

(2008) Colin A. Smith et al.   JOURNAL OF MOLECULAR BIOLOGY

Multi-constraint computational design suggests that native sequences of germline antibody H3 loops are nearly optimal for conformational flexibility

(2008) Mariana Babor et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Prediction of Protein-Protein Interface Sequence Diversity Using Flexible Backbone Computational Protein Design

(2008) Elisabeth L. Humphris et al.   STRUCTURE

Toward Full-Sequence De Novo Protein Design with Flexible Templates for Human Beta-Defensin-2

(2007) Ho Ki Fung et al.   BIOPHYSICAL JOURNAL