Publications

Sort by: [ Author (Asc)] Title Type Year
Filters: First Letter Of Last Name is D  [Clear All Filters]
A B C [D] E F G H I J K L M N O P Q R S T U V W X Y Z   [Show ALL]
D
D, B., HS C., & KA D. (1993).  Coordinate-Space Formulation of Polymer Lattice Cluster Theory. Journal of Chemical Physics .  Download: baker93B.pdf (960.07 KB)
Dantas, G., Watters A. L., Lunde B. M., Eletr Z. M., Isern N. G., Roseman T., et al. (2006).  Mis-translation of a computationally designed protein yields an exceptionally stable homodimer: implications for protein engineering and evolution. Journal of molecular biology. 362(5), 1004-24. Abstract  Download: dantas06A.pdf (1.15 MB)
Dantas, G., Corrent C., Reichow S. L., Havranek J. J., Eletr Z. M., Isern N. G., et al. (2007).  High-resolution structural and thermodynamic analysis of extreme stabilization of human procarboxypeptidase by computational protein design. Journal of molecular biology. 366(4), 1209-21. Abstract  Download: dantas07A.pdf (1.71 MB)
Dantas, G., Kuhlman B., Callender D., Wong M., & Baker D. (2003).  A large scale test of computational protein design: folding and stability of nine completely redesigned globular proteins. Journal of molecular biology. 332(2), 449-60. Abstract  Download: dantas03A.pdf (1.96 MB)
Das, R., & Baker D. (2009).  Prospects for de novo phasing with de novo protein models. Acta crystallographica. 65(Pt 2), 169-75. Abstract  Download: das09B.pdf (713.43 KB)
Das, R., Kudaravalli M., Jonikas M., Laederach A., Fong R., Schwans J. P., et al. (2008).  Structural inference of native and partially folded RNA by high-throughput contact mapping. Proceedings of the National Academy of Sciences of the United States of America. 105(11), 4144-9. Abstract  Download: das08A.pdf (806.02 KB)
Das, R., Qian B., Raman S., Vernon R., Thompson J., Bradley P., et al. (2007).  Structure prediction for CASP7 targets using extensive all-atom refinement with Rosetta@home. Proteins. 69 Suppl 8, 118-28. Abstract  Download: das07B.pdf (808.02 KB)
Das, R., Karanicolas J., & Baker D. (2010).  Atomic accuracy in predicting and designing noncanonical RNA structure. Nature methods. 7(4), 291-4. Abstract  Download: das10A.pdf (1.13 MB)
Das, R., & Baker D. (2008).  Macromolecular modeling with rosetta. Annual review of biochemistry. 77, 363-82. Abstract  Download: das08A.pdf (1.13 MB)
Das, R., AndrĂ© I., Shen Y., Wu Y., Lemak A., Bansal S., et al. (2009).  Simultaneous prediction of protein folding and docking at high resolution. Proceedings of the National Academy of Sciences of the United States of America. 106(45), 18978-83. Abstract  Download: das09A.pdf (1.57 MB)
Das, R., & Baker D. (2007).  Automated de novo prediction of native-like RNA tertiary structures. Proceedings of the National Academy of Sciences of the United States of America. 104(37), 14664-9. Abstract  Download: das07A.pdf (1.29 MB)
Davis, I. W., Raha K., Head M. S., & Baker D. (2009).  Blind docking of pharmaceutically relevant compounds using RosettaLigand. Protein science. 18(9), 1998-2002. Abstract  Download: davis09A.pdf (261.62 KB)
Davis, I. W., & Baker D. (2009).  RosettaLigand docking with full ligand and receptor flexibility. Journal of molecular biology. 385(2), 381-92. Abstract  Download: davis09B.pdf (1.36 MB)
Dietrich, J. A., Yoshikuni Y., Fisher K. J., Woolard F. X., Ockey D., McPhee D. J., et al. (2009).  A novel semi-biosynthetic route for artemisinin production using engineered substrate-promiscuous P450(BM3). ACS chemical biology. 4(4), 261-7. Abstract  Download: dietrich09A.pdf (1.67 MB)
DiMaio, F., Terwilliger T. C., Read R. J., Wlodawer A., Oberdorfer G., Wagner U., et al. (2011).  Improved molecular replacement by density- and energy-guided protein structure optimization. Nature. Abstract  Download: dimaio11A.pdf (972.77 KB)
DiMaio, F., Tyka M. D., Baker M. L., Chiu W., & Baker D. (2009).  Refinement of protein structures into low-resolution density maps using rosetta. Journal of molecular biology. 392(1), 181-90. Abstract  Download: dimaio09A.pdf (1.54 MB)
Dobson, N., Dantas G., Baker D., & Varani G. (2006).  High-resolution structural validation of the computational redesign of human U1A protein. Structure. 14(5), 847-56. Abstract  Download: dobson06A.pdf (448.74 KB)
Doyle, R., Simons K., Qian H., & Baker D. (1997).  Local interactions and the optimization of protein folding. Proteins. 29(3), 282-91. Abstract  Download: doyle97A.pdf (161.67 KB)