Modeling Disordered Regions in Proteins Using Rosetta

Bằng Wang, Ray Yu-Ruei, Han, Yan, Krassovsky, Kristina, Sheffler, William, Tyka, Michael, Baker, David
Được phát hành 2011

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

Bằng Kim, David E., DiMaio, Frank, Wang, Ray Yu-Ruei, Song, Yifan, Baker, David
Được phát hành 2013

Structure prediction using sparse simulated NOE restraints with Rosetta in CASP11

Bằng Ovchinnikov, Sergey, Park, Hahnbeom, Kim, David E., Liu, Yuan, Wang, Ray Yu-Ruei, Baker, David
Xuất bản năm Proteins (2016)

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

Bằng Wang, Ray Yu-Ruei, Song, Yifan, Barad, Benjamin A, Cheng, Yifan, Fraser, James S, DiMaio, Frank
Xuất bản năm eLife (2016)

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

Bằng Ovchinnikov, Sergey, Kim, David E., Wang, Ray Yu-Ruei, Liu, Yuan, DiMaio, Frank, Baker, David
Xuất bản năm Proteins (2016)

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

Bằng Verba, Kliment A., Wang, Ray Yu-Ruei, Arakawa, Akihiko, Liu, Yanxin, Shirouzu, Mikako, Yokoyama, Shigeyuki, Agard, David A.
Xuất bản năm Science (2016)

High resolution comparative modeling with RosettaCM

Bằng Song, Yifan, DiMaio, Frank, Wang, Ray Yu-Ruei, Kim, David, Miles, Chris, Brunette, TJ, Thompson, James, Baker, David
Được phát hành 2013

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

Bằng Barad, Benjamin A, Echols, Nathaniel, Wang, Ray Yu-Ruei, Cheng, Yifan, DiMaio, Frank, Adams, Paul D, Fraser, James S
Xuất bản năm Nat Methods (2015)

Structural Basis of Mitochondrial Receptor Binding and Constriction by DRP1

Bằng Kalia, Raghav, Wang, Ray Yu-Ruei, Yusuf, Ali, Thomas, Paul V., Agard, David A., Shaw, Janet M., Frost, Adam
Xuất bản năm Nature (2018)

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

Bằng Wang, Ray Yu-Ruei, Kudryashev, Mikhail, Li, Xueming, Egelman, Edward H., Basler, Marek, Cheng, Yifan, Baker, David, DiMaio, Frank
Xuất bản năm Nat Methods (2015)

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

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

Structure of the Type VI secretion system contractile sheath

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

Macromolecular modeling and design in Rosetta: recent methods and frameworks

Bằng 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
Xuất bản năm Nat Methods (2020)