Modeling Disordered Regions in Proteins Using Rosetta

af Wang, Ray Yu-Ruei, Han, Yan, Krassovsky, Kristina, Sheffler, William, Tyka, Michael, Baker, David
Udgivet 2011

One contact for every twelve residues allows robust and accurate topology-level protein structure modeling

af Kim, David E., DiMaio, Frank, Wang, Ray Yu-Ruei, Song, Yifan, Baker, David
Udgivet 2013

Structure prediction using sparse simulated NOE restraints with Rosetta in CASP11

af Ovchinnikov, Sergey, Park, Hahnbeom, Kim, David E., Liu, Yuan, Wang, Ray Yu-Ruei, Baker, David
Udgivet i Proteins (2016)

Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta

af Wang, Ray Yu-Ruei, Song, Yifan, Barad, Benjamin A, Cheng, Yifan, Fraser, James S, DiMaio, Frank
Udgivet i eLife (2016)

Improved de novo structure prediction in CASP11 by incorporating coevolution information into Rosetta

af Ovchinnikov, Sergey, Kim, David E., Wang, Ray Yu-Ruei, Liu, Yuan, DiMaio, Frank, Baker, David
Udgivet i Proteins (2016)

Atomic structure of Hsp90:Cdc37:Cdk4 reveals Hsp90 regulates kinase via dramatic unfolding

af Verba, Kliment A., Wang, Ray Yu-Ruei, Arakawa, Akihiko, Liu, Yanxin, Shirouzu, Mikako, Yokoyama, Shigeyuki, Agard, David A.
Udgivet i Science (2016)

High resolution comparative modeling with RosettaCM

af Song, Yifan, DiMaio, Frank, Wang, Ray Yu-Ruei, Kim, David, Miles, Chris, Brunette, TJ, Thompson, James, Baker, David
Udgivet 2013

EMRinger: Side-chain-directed model and map validation for 3D Electron Cryomicroscopy

af Barad, Benjamin A, Echols, Nathaniel, Wang, Ray Yu-Ruei, Cheng, Yifan, DiMaio, Frank, Adams, Paul D, Fraser, James S
Udgivet i Nat Methods (2015)

Structural Basis of Mitochondrial Receptor Binding and Constriction by DRP1

af Kalia, Raghav, Wang, Ray Yu-Ruei, Yusuf, Ali, Thomas, Paul V., Agard, David A., Shaw, Janet M., Frost, Adam
Udgivet i Nature (2018)

De novo protein structure determination from near-atomic resolution cryo-EM maps

af Wang, Ray Yu-Ruei, Kudryashev, Mikhail, Li, Xueming, Egelman, Edward H., Basler, Marek, Cheng, Yifan, Baker, David, DiMaio, Frank
Udgivet i Nat Methods (2015)

Unique double-ring structure of the peroxisomal Pex1/Pex6 ATPase complex revealed by cryo-electron microscopy

af Blok, Neil B., Tan, Dongyan, Wang, Ray Yu-Ruei, Penczek, Pawel A., Baker, David, DiMaio, Frank, Rapoport, Tom A., Walz, Thomas
Udgivet i Proc Natl Acad Sci U S A (2015)

Structure of the Type VI secretion system contractile sheath

af Kudryashev, Mikhail, Wang, Ray Yu-Ruei, Brackmann, Maximilian, Scherer, Sebastian, Maier, Timm, Baker, David, DiMaio, Frank, Stahlberg, Henning, Egelman, Edward H., Basler, Marek
Udgivet i Cell (2015)

Macromolecular modeling and design in Rosetta: recent methods and frameworks

af Koehler Leman, Julia, Weitzner, Brian D, Lewis, Steven M, Adolf-Bryfogle, Jared, Alam, Nawsad, Alford, Rebecca F, Aprahamian, Melanie, Baker, David, Barlow, Kyle A, Barth, Patrick, Basanta, Benjamin, Bender, Brian J, Blacklock, Kristin, Bonet, Jaume, Boyken, Scott, Bradley, Phil, Bystroff, Chris, Conway, Patrick, Cooper, Seth, Correia, Bruno E, Coventry, Brian, Das, Rhiju, De Jong, René M, DiMaio, Frank, Dsilva, Lorna, Dunbrack, Roland, Ford, Alex, Frenz, Brandon, Fu, Darwin Y, Geniesse, Caleb, Goldschmidt, Lukasz, Gowthaman, Ragul, Gray, Jeffrey J, Gront, Dominik, Guffy, Sharon, Horowitz, Scott, Huang, Po-Ssu, Huber, Thomas, Jacobs, Tim M, Jeliazkov, Jeliazko R, Johnson, David K, Kappel, Kalli, Karanicolas, John, Khakzad, Hamed, Khar, Karen R, Khare, Sagar D, Khatib, Firas, Khramushin, Alisa, King, Indigo C, Kleffner, Robert, Koepnick, Brian, Kortemme, Tanja, Kuenze, Georg, Kuhlman, Brian, Kuroda, Daisuke, Labonte, Jason W, Lai, Jason K, Lapidoth, Gideon, Leaver-Fay, Andrew, Lindert, Steffen, Linsky, Thomas, London, Nir, Lubin, Joseph H, Lyskov, Sergey, Maguire, Jack, Malmström, Lars, Marcos, Enrique, Marcu, Orly, Marze, Nicholas A, Meiler, Jens, Moretti, Rocco, Mulligan, Vikram Khipple, Nerli, Santrupti, Norn, Christoffer, Ó’Conchúir, Shane, Ollikainen, Noah, Ovchinnikov, Sergey, Pacella, Michael S, Pan, Xingjie, Park, Hahnbeom, Pavlovicz, Ryan E, Pethe, Manasi, Pierce, Brian G, Pilla, Kala Bharath, Raveh, Barak, Renfrew, P Douglas, Roy Burman, Shourya S, Rubenstein, Aliza, Sauer, Marion F, Scheck, Andreas, Schief, William, Schueler-Furman, Ora, Sedan, Yuval, Sevy, Alexander M, Sgourakis, Nikolaos G, Shi, Lei, Siegel, Justin, Silva, Daniel-Adriano, Smith, Shannon, Song, Yifan, Stein, Amelie, Szegedy, Maria, Teets, Frank D, Thyme, Summer B, Wang, Ray Yu-Ruei, Watkins, Andrew, Zimmerman, Lior, Bonneau, Richard
Udgivet i Nat Methods (2020)