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David Baker



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RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design

Computational protein design tools to date have been useful for engineering proteins with a wide range of functions, including DNA binding, co-factor binding, catalysis, fluorescence spectral change, peptide-protein specificity, and protein-protein interaction. In building nanostructures, computational protein design methods have been applied to designing hyperthermophilic proteins, metalloproteins, water-soluble membrane channels, and higher order macromolecular assemblies. Many of these successes rely on fixed backbone approaches that maintain the backbone conformations seen in the original high-resolution crystal structures and focus on remodeling only the sidechains.

Superfamily Assignments for the Yeast Proteome through Integration of Structure Prediction with the Gene Ontology

The yeast Saccharomyces cerevisiae is one of the most widely studied organisms, yet a large fraction of its proteins are of unknown structure and/or unknown function. Knowledge of the structure of a protein is critical to understand how it functions, and hence, a complete set of protein structures for yeast is desirable, but difficult to accomplish experimentally.

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Superfamily Assignments for the Yeast Proteome through Integration of Structure Prediction with the Gene Ontology

The yeast Saccharomyces cerevisiae is one of the most widely studied organisms, yet a large fraction of its proteins are of unknown structure and/or unknown function. Knowledge of the structure of a protein is critical to understand how it functions, and hence, a complete set of protein structures for yeast is desirable, but difficult to accomplish experimentally.

RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design

Computational protein design tools to date have been useful for engineering proteins with a wide range of functions, including DNA binding, co-factor binding, catalysis, fluorescence spectral change, peptide-protein specificity, and protein-protein interaction. In building nanostructures, computational protein design methods have been applied to designing hyperthermophilic proteins, metalloproteins, water-soluble membrane channels, and higher order macromolecular assemblies. Many of these successes rely on fixed backbone approaches that maintain the backbone conformations seen in the original high-resolution crystal structures and focus on remodeling only the sidechains.

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RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design

Computational protein design tools to date have been useful for engineering proteins with a wide range of functions, including DNA binding, co-factor binding, catalysis, fluorescence spectral change, peptide-protein specificity, and protein-protein interaction. In building nanostructures, computational protein design methods have been applied to designing hyperthermophilic proteins, metalloproteins, water-soluble membrane channels, and higher order macromolecular assemblies. Many of these successes rely on fixed backbone approaches that maintain the backbone conformations seen in the original high-resolution crystal structures and focus on remodeling only the sidechains.

Superfamily Assignments for the Yeast Proteome through Integration of Structure Prediction with the Gene Ontology

The yeast Saccharomyces cerevisiae is one of the most widely studied organisms, yet a large fraction of its proteins are of unknown structure and/or unknown function. Knowledge of the structure of a protein is critical to understand how it functions, and hence, a complete set of protein structures for yeast is desirable, but difficult to accomplish experimentally.

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