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- Publications
- Influence
High-resolution comparative modeling with RosettaCM.
TLDR
The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design.
- Rebecca F Alford, A. Leaver-Fay, +17 authors J. J. Gray
- Physics, Medicine
- Journal of chemical theory and computation
- 12 May 2017
Over the past decade, the Rosetta biomolecular modeling suite has informed diverse biological questions and engineering challenges ranging from interpretation of low-resolution structural data to… Expand
Structure prediction for CASP8 with all‐atom refinement using Rosetta
- S. Raman, Robert F. Vernon, +13 authors D. Baker
- Computer Science, Medicine
- Proteins
- 2009
TLDR
EMRinger: Side-chain-directed model and map validation for 3D Electron Cryomicroscopy
- Benjamin A. Barad, N. Echols, +4 authors J. Fraser
- Materials Science, Medicine
- Nature Methods
- 29 July 2015
Advances in high-resolution cryo-electron microscopy (cryo-EM) require the development of validation metrics to independently assess map quality and model geometry. We report EMRinger, a tool that… Expand
Structural basis for scaffolding-mediated assembly and maturation of a dsDNA virus
- Dh Chen, M. L. Baker, +10 authors W. Chiu
- Biology, Medicine
- Proceedings of the National Academy of Sciences
- 10 January 2011
Formation of many dsDNA viruses begins with the assembly of a procapsid, containing scaffolding proteins and a multisubunit portal but lacking DNA, which matures into an infectious virion. This… Expand
Glycan shield and epitope masking of a coronavirus spike protein observed by cryo-electron microscopy
- A. Walls, M. Tortorici, +6 authors D. Veesler
- Biology, Medicine
- Nature Structural &Molecular Biology
- 12 September 2016
The threat of a major coronavirus pandemic urges the development of strategies to combat these pathogens. Human coronavirus NL63 (HCoV-NL63) is an α-coronavirus that can cause severe… Expand
Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta
- Ray Yu-Ruei Wang, Y. Song, Benjamin A. Barad, Y. Cheng, J. Fraser, F. Dimaio
- Computer Science, Medicine
- eLife
- 26 September 2016
TLDR
Crystal structure of a monomeric retroviral protease solved by protein folding game players
- F. Khatib, F. Dimaio, +9 authors D. Baker
- Biology, Medicine
- Nature Structural &Molecular Biology
- 1 October 2011
Following the failure of a wide range of attempts to solve the crystal structure of M-PMV retroviral protease by molecular replacement, we challenged players of the protein folding game Foldit to… Expand
Atomic accuracy models from 4.5 Å cryo-electron microscopy data with density-guided iterative local refinement
We describe a general approach for refining protein structure models on the basis of cryo-electron microscopy maps with near-atomic resolution. The method integrates Monte Carlo sampling with local… Expand
Near-atomic model of microtubule-tau interactions
- E. H. Kellogg, Nisreen M. A. Hejab, S. Poepsel, K. Downing, F. Dimaio, E. Nogales
- Chemistry, Medicine
- Science
- 15 June 2018
Tackling microtubule-tau interactions Alzheimer's disease is a major cause of death in the elderly. Disease progression is associated with the accumulation of neurofibrillary tangles composed of tau,… Expand