Publications

Found 390 results

2012
Yarov-Yarovoy, V., DeCaen P. G., Westenbroek R. E., Pan C. - Y., Scheuer T., Baker D., et al. (2012).  Structural basis for gating charge movement in the voltage sensor of a sodium channel. Proceedings of the National Academy of Sciences of the United States of America. 109(2), E93-102. Abstract  Download: yarov-yarovoy12A.pdf (2.46 MB)
Gordon, S. R., Stanley E. J., Wolf S., Toland A., Wu S. J., Hadidi D., et al. (2012).  Computational Design of an α-gliadin Peptidase. Journal of the American Chemical Society. 134(50), 20513-20. Abstract  Download: Gordon12E.pdf (2.05 MB)
2011
Valkov, E., Stamp A., DiMaio F., Baker D., Verstak B., Roversi P., et al. (2011).  Crystal structure of Toll-like receptor adaptor MAL/TIRAP reveals the molecular basis for signal transduction and disease protection. Proceedings of the National Academy of Sciences of the United States of America. 108(36), 14879-84. Abstract  Download: crystalstructureoftoll_Baker2011.pdf (842.96 KB)
Wu, S. J., Eiben C. B., Carra J. H., Huang I., Zong D., Liu P., et al. (2011).  Improvement of a potential anthrax therapeutic by computational protein design. The Journal of Biological Chemistry. 286(37), 32586-92. Abstract  Download: improvementofa_Baker2011.pdf (1.71 MB)
Khatib, F., Cooper S., Tyka M. D., Xu K., Makedon I., Popovic Z., et al. (2011).  Algorithm discovery by protein folding game players.. Proceedings of the National Academy of Sciences of the United States of America. Abstract  Download: Khatib11B.pdf (2.4 MB)
Gilski, M., Kazmierczyk M., Krzywda S., Zábranská H., Cooper S., Popović Z., et al. (2011).  High-resolution structure of a retroviral protease folded as a monomer. Acta Crystallographica. Section D, Biological Crystallography. 67(Pt 11), 907-14. Abstract  Download: highresolutionstructure_Baker2011.pdf (1.58 MB)
Lyskowski, A., Oeemig J. S., Jaakkonen A., Rommi K., DiMaio F., Zhou D., et al. (2011).  Cloning, expression, purification, crystallization and preliminary X-ray diffraction data of the Pyrococcus horikoshii RadA intein. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 67(Pt 5), 623-6. Abstract  Download: cloningexpressionpurification_Baker2011.pdf (341.98 KB)
Chen, D. - H., Baker M. L., Hryc C. F., DiMaio F., Jakana J., Wu W., et al. (2011).  Structural basis for scaffolding-mediated assembly and maturation of a dsDNA virus. Proceedings of the National Academy of Sciences of the United States of America. 108(4), 1355-60. Abstract  Download: chen11A.pdf (2.71 MB)
Li, M., DiMaio F., Zhou D., Gustchina A., Lubkowski J., Dauter Z., et al. (2011).  Crystal structure of XMRV protease differs from the structures of other retropepsins. Nature structural & molecular biology. 18(2), 227-9. Abstract  Download: li11A.pdf (663.49 KB)
2010
Kiss, G., Röthlisberger D., Baker D., & Houk K. N. (2010).  Evaluation and ranking of enzyme designs. Protein science. 19(9), 1760-73. Abstract  Download: kiss10A.pdf (884.51 KB)
Ofek, G., Guenaga J. F., Schief W. R., Skinner J., Baker D., Wyatt R., et al. (2010).  Elicitation of structure-specific antibodies by epitope scaffolds. Proceedings of the National Academy of Sciences of the United States of America. 107(42), 17880-7. Abstract  Download: ofek10A.pdf (2.68 MB)
Blum, B., Jordan M. I., & Baker D. (2010).  Feature space resampling for protein conformational search. Proteins. 78(6), 1583-93. Abstract  Download: blum10A.pdf (621.02 KB)
Meenan, N. A. G., Sharma A., Fleishman S. J., Macdonald C. J., Morel B., Boetzel R., et al. (2010).  The structural and energetic basis for high selectivity in a high-affinity protein-protein interaction.. Proceedings of the National Academy of Sciences of the United States of America. 107(22), 10080-5. Abstract  Download: thestructuralandenergetic_Baker2010.pdf (837.11 KB)
Raman, S., Huang Y. J., Mao B., Rossi P., Aramini J. M., Liu G., et al. (2010).  Accurate automated protein NMR structure determination using unassigned NOESY data. Journal of the American Chemical Society. 132(1), 202-7. Abstract  Download: raman10A.pdf (3.49 MB)
Liu, L., Murphy P., Baker D., & Lutz S. (2010).  Computational design of orthogonal nucleoside kinases. Chemical communications. 46(46), 8803-5. Abstract  Download: liu10A.pdf (1.22 MB)
Tang, Y., Schneider W. M., Shen Y., Raman S., Inouye M., Baker D., et al. (2010).  Fully automated high-quality NMR structure determination of small (2)H-enriched proteins. Journal of structural and functional genomics. 11(4), 223-32. Abstract  Download: tang10A.pdf (451.53 KB)
Cooper, S., Treuille A., Barbero J., Leaver-Fay A., Tuite K., Khatib F., et al. (2010).  The Challenge of Designing Scientific Discovery Games. Proceedings of the Fifth international Conference on the Foundations of Digital Games. Abstract  Download: cooper10A.pdf (1.19 MB)
2009