Prati
Frank DiMaio
Frank DiMaio
Potvrđena adresa e-pošte na uw.edu
Naslov
Citirano
Citirano
Godina
Accurate prediction of protein structures and interactions using a three-track neural network
M Baek, F DiMaio, I Anishchenko, J Dauparas, S Ovchinnikov, GR Lee, ...
Science 373 (6557), 871-876, 2021
10762021
High-resolution comparative modeling with RosettaCM
Y Song, F DiMaio, RYR Wang, D Kim, C Miles, TJ Brunette, J Thompson, ...
Structure 21 (10), 1735-1742, 2013
8552013
The Rosetta all-atom energy function for macromolecular modeling and design
RF Alford, A Leaver-Fay, JR Jeliazkov, MJ O’Meara, FP DiMaio, H Park, ...
Journal of chemical theory and computation 13 (6), 3031-3048, 2017
7842017
Crystal structure of a monomeric retroviral protease solved by protein folding game players
F Khatib, F DiMaio, S Cooper, M Kazmierczyk, M Gilski, S Krzywda, ...
Nature structural & molecular biology 18 (10), 1175-1177, 2011
6282011
EMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy
BA Barad, N Echols, RYR Wang, Y Cheng, F DiMaio, PD Adams, ...
Nature methods 12 (10), 943-946, 2015
5972015
Structure prediction for CASP8 with all‐atom refinement using Rosetta
S Raman, R Vernon, J Thompson, M Tyka, R Sadreyev, J Pei, D Kim, ...
Proteins: Structure, Function, and Bioinformatics 77 (S9), 89-99, 2009
5092009
Cryo-electron microscopy structure of a coronavirus spike glycoprotein trimer
AC Walls, MA Tortorici, BJ Bosch, B Frenz, PJM Rottier, F DiMaio, FA Rey, ...
Nature 531 (7592), 114-117, 2016
4592016
Glycan shield and epitope masking of a coronavirus spike protein observed by cryo-electron microscopy
AC Walls, MA Tortorici, B Frenz, J Snijder, W Li, FA Rey, F DiMaio, ...
Nature structural & molecular biology 23 (10), 899-905, 2016
3252016
Atomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement
F DiMaio, Y Song, X Li, MJ Brunner, C Xu, V Conticello, E Egelman, ...
Nature methods 12 (4), 361-365, 2015
3112015
Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta
RYR Wang, Y Song, BA Barad, Y Cheng, JS Fraser, F DiMaio
Elife 5, e17219, 2016
2862016
Refinement of protein structures into low-resolution density maps using rosetta
F DiMaio, MD Tyka, ML Baker, W Chiu, D Baker
Journal of molecular biology 392 (1), 181-190, 2009
2862009
Alternate states of proteins revealed by detailed energy landscape mapping
MD Tyka, DA Keedy, I André, F DiMaio, Y Song, DC Richardson, ...
Journal of molecular biology 405 (2), 607-618, 2011
2762011
De novo design of protein homo-oligomers with modular hydrogen-bond network–mediated specificity
SE Boyken, Z Chen, B Groves, RA Langan, G Oberdorfer, A Ford, ...
Science 352 (6286), 680-687, 2016
2742016
Simultaneous optimization of biomolecular energy functions on features from small molecules and macromolecules
H Park, P Bradley, P Greisen Jr, Y Liu, VK Mulligan, DE Kim, D Baker, ...
Journal of chemical theory and computation 12 (12), 6201-6212, 2016
2682016
High thermodynamic stability of parametrically designed helical bundles
PS Huang, G Oberdorfer, C Xu, XY Pei, BL Nannenga, JM Rogers, ...
science 346 (6208), 481-485, 2014
2642014
Relaxation of backbone bond geometry improves protein energy landscape modeling
P Conway, MD Tyka, F DiMaio, DE Konerding, D Baker
Protein Science 23 (1), 47-55, 2014
2622014
Improved molecular replacement by density-and energy-guided protein structure optimization
F DiMaio, TC Terwilliger, RJ Read, A Wlodawer, G Oberdorfer, U Wagner, ...
Nature 473 (7348), 540-543, 2011
2482011
Near-atomic model of microtubule-tau interactions
EH Kellogg, NMA Hejab, S Poepsel, KH Downing, F DiMaio, E Nogales
Science 360 (6394), 1242-1246, 2018
2452018
Macromolecular modeling and design in Rosetta: recent methods and frameworks
JK Leman, BD Weitzner, SM Lewis, J Adolf-Bryfogle, N Alam, RF Alford, ...
Nature methods 17 (7), 665-680, 2020
2422020
Design of ordered two-dimensional arrays mediated by noncovalent protein-protein interfaces
S Gonen, F DiMaio, T Gonen, D Baker
Science 348 (6241), 1365-1368, 2015
2302015
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