Integrating Theory, Computational and Experiment to Robustly Design Complex Protein-based Nanomaterials

Project Personnel

David Baker

Principal Investigator

University of Washington

Email

Todd Yeates

Co-Principal Investigator

University of California, Los Angeles

Email

Funding Divisions

Division of Chemistry (CHE), Office of Multidisciplinary Activities (OMA)

This project will develop robust methods for the design of complex protein-based nanomaterials. The research project will integrate theory, computation, and experiment to describe the possible space of symmetric protein assemblies and develop methods for the rapid and reliable production of novel materials. An atlas of theoretical symmetric architectures will be delineated and integrated with cutting-edge protein structure modeling software to identify novel amino acid sequences predicted to self-assemble into precisely defined structures. The corresponding proteins will be produced experimentally and their structures determined at high resolution to provide feedback for the improvement of both the theoretical and computational aspects of the program. In this way, a general approach for patterning complex protein-based materials with sub-nanometer resolution will be developed that is expected to have a profound impact on the fields of molecular self-assembly and nanomaterials. Long-term outcomes of this basic research could include the development of new types of medicines, materials with unprecedented properties, and other useful chemical technologies.

Publications

Confirmation of intersubunit connectivity and topology of designed protein complexes by native MS
A. Sahasrabuddhe, Y. Hsia, F. Busch, W. Sheffler, N. P. King, D. Baker, and V. H. Wysocki
1/19/2018
Computational design of self-assembling cyclic protein homo-oligomers
J. A. Fallas, G. Ueda, W. Sheffler, V. Nguyen, D. E. McNamara, B. Sankaran, J. H. Pereira, F. Parmeggiani, T. J. Brunette, D. Cascio, T. R. Yeates, P. Zwart, and D. Baker
12/5/2016
Designing and defining dynamic protein cage nanoassemblies in solution
Y. Lai, G. L. Hura, K. N. Dyer, H. Y. H. Tang, J. A. Tainer, and T. O. Yeates
12/2/2016
Multivalent Display of Antifreeze Proteins by Fusion to Self-Assembling Protein Cages Enhances Ice-Binding Activities
S. W. Phippen, C. A. Stevens, T. D. R. Vance, N. P. King, D. Baker, and P. L. Davies
11/29/2016
Accurate design of megadalton-scale two-component icosahedral protein complexes
J. B. Bale, S. Gonen, Y. Liu, W. Sheffler, D. Ellis, C. Thomas, D. Cascio, T. O. Yeates, T. Gonen, N. P. King, and D. Baker
7/22/2016
Design of a hyperstable 60-subunit protein icosahedron
Y. Hsia, J. B. Bale, S. Gonen, D. Shi, W. Sheffler, K. K. Fong, U. Nattermann, C. Xu, P. Huang, R. Ravichandran, S. Yi, T. N. Davis, T. Gonen, N. P. King, and D. Baker
6/15/2016
Exploring the repeat protein universe through computational protein design
T. Brunette, F. Parmeggiani, P. Huang, G. Bhabha, D. C. Ekiert, S. E. Tsutakawa, G. L. Hura, J. A. Tainer, and D. Baker
12/1/2015
Structure of a designed tetrahedral protein assembly variant engineered to have improved soluble expression
J. B. Bale, R. U. Park, Y. Liu, S. Gonen, T. Gonen, D. Cascio, N. P. King, T. O. Yeates, and D. Baker
8/6/2015
Structure of a designed protein cage that self-assembles into a highly porous cube
Y. Lai, E. Reading, G. L. Hura, K. Tsai, A. Laganowsky, F. J. Asturias, J. A. Tainer, C. V. Robinson, and T. O. Yeates
11/10/2014
Accurate design of co-assembling multi-component protein nanomaterials
N. P. King, J. B. Bale, W. Sheffler, D. E. McNamara, S. Gonen, T. Gonen, T. O. Yeates, and D. Baker
5/25/2014

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Research Highlights

Integrating Theory, Computation, and Experiments to Robustly Design Complex Protein-based Nanomaterials
David Baker (University of Washington) and Todd Yeates (UCLA)
10/25/2024

Designing Materials to Revolutionize and Engineer our Future (DMREF)