Coupling Protein Side-Chain and Backbone Flexibility Improves the Re-design of Protein-Ligand Specificity

door Ollikainen, Noah, de Jong, René M., Kortemme, Tanja
Gepubliceerd in PLoS Comput Biol (2015)

Saturation mutagenesis of Asn152 reveals a substrate selectivity switch in P99 cephalosporinase

door Lefurgy, Scott T., de Jong, René M., Cornish, Virginia W.
Gepubliceerd in 2007

The X-Ray Structure of the Haloalcohol Dehalogenase HheA from Arthrobacter sp. Strain AD2: Insight into Enantioselectivity and Halide Binding in the Haloalcohol Dehalogenase Family

door de Jong, René M., Kalk, Kor H., Tang, Lixia, Janssen, Dick B., Dijkstra, Bauke W.
Gepubliceerd in 2006

Engineering of an endogenous hexose transporter into a specific D-xylose transporter facilitates glucose-xylose co-consumption in Saccharomyces cerevisiae

door Nijland, Jeroen G, Shin, Hyun Yong, de Jong, René M, de Waal, Paul P, Klaassen, Paul, Driessen, Arnold JM
Gepubliceerd in Biotechnol Biofuels (2014)

Metal Dependence of the Xylose Isomerase from Piromyces sp. E2 Explored by Activity Profiling and Protein Crystallography

door Lee, Misun, Rozeboom, Henriëtte J., de Waal, Paul P., de Jong, Rene M., Dudek, Hanna M., Janssen, Dick B.
Gepubliceerd in Biochemistry (2017)

An engineered cryptic Hxt11 sugar transporter facilitates glucose–xylose co-consumption in Saccharomyces cerevisiae

door Shin, Hyun Yong, Nijland, Jeroen G., de Waal, Paul P., de Jong, René M., Klaassen, Paul, Driessen, Arnold J. M.
Gepubliceerd in Biotechnol Biofuels (2015)

Rhodoxanthin synthase from honeysuckle; a membrane diiron enzyme catalyzes the multistep conversation of β-carotene to rhodoxanthin

door Royer, John, Shanklin, John, Balch-Kenney, Nathalie, Mayorga, Maria, Houston, Peter, de Jong, René M., McMahon, Jenna, Laprade, Lisa, Blomquist, Paul, Berry, Timothy, Cai, Yuanheng, LoBuglio, Katherine, Trueheart, Joshua, Chevreux, Bastien
Gepubliceerd in Sci Adv (2020)

CorNet: Assigning function to networks of co-evolving residues by automated literature mining

door van den Bergh, Tom, Tamo, Giorgio, Nobili, Alberto, Tao, Yifeng, Tan, Tianwei, Bornscheuer, Uwe T., Kuipers, Remko K. P., Vroling, Bas, de Jong, René M., Subramanian, Kalyanasundaram, Schaap, Peter J., Desmet, Tom, Nidetzky, Bernd, Vriend, Gert, Joosten, Henk-Jan
Gepubliceerd in PLoS One (2017)

Macromolecular modeling and design in Rosetta: recent methods and frameworks

door 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
Gepubliceerd in Nat Methods (2020)