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76 entries « 1 of 4 »
1.

Jiang, Hanlun; Jude, Kevin M.; Wu, Kejia; Fallas, Jorge; Ueda, George; Brunette, T. J.; Hicks, Derrick R.; Pyles, Harley; Yang, Aerin; Carter, Lauren; Lamb, Mila; Li, Xinting; Levine, Paul M.; Stewart, Lance; Garcia, K. Christopher; Baker, David

De novo design of buttressed loops for sculpting protein functions Journal Article

In: Nature Chemical Biology, 2024.

Abstract | Links | BibTeX

2.

Craven, Timothy W.; Nolan, Mark D.; Bailey, Jonathan; Olatunji, Samir; Bann, Samantha J.; Bowen, Katherine; Ostrovitsa, Nikita; Costa, Thaina M. Da; Ballantine, Ross D.; Weichert, Dietmar; Levine, Paul M.; Stewart, Lance J.; Bhardwaj, Gaurav; Geoghegan, Joan A.; Cochrane, Stephen A.; Scanlan, Eoin M.; Caffrey, Martin; Baker, David

Computational Design of Cyclic Peptide Inhibitors of a Bacterial Membrane Lipoprotein Peptidase Journal Article

In: ACS Chemical Biology, 2024.

Abstract | Links | BibTeX

3.

Sahtoe, Danny D.; Andrzejewska, Ewa A.; Han, Hannah L.; Rennella, Enrico; Schneider, Matthias M.; Meisl, Georg; Ahlrichs, Maggie; Decarreau, Justin; Nguyen, Hannah; Kang, Alex; Levine, Paul; Lamb, Mila; Li, Xinting; Bera, Asim K.; Kay, Lewis E.; Knowles, Tuomas P. J.; Baker, David

Design of amyloidogenic peptide traps Journal Article

In: Nature Chemical Biology, 2024.

Abstract | Links | BibTeX

4.

Mateos, Diego Lopez; Murray, Adam M.; Nguyen, Hai M.; Venkatesh, Preetham; Koepnick, Brian; Baker, David; Wulff, Heike; Yarov-Yarovoy, Vladimir

Computational design of binders targeting the VSDIV from NaV1.7 sodium channel Journal Article

In: Biophysical Journal, 2024.

Abstract | Links | BibTeX

5.

Torres, Susana Vázquez; Leung, Philip J Y; Venkatesh, Preetham; Lutz, Isaac D; Hink, Fabian; Huynh, Huu-Hien; Becker, Jessica; Yeh, Andy Hsien-Wei; Juergens, David; Bennett, Nathaniel R; Hoofnagle, Andrew N; Huang, Eric; MacCoss, Michael J; Expòsit, Marc; Lee, Gyu Rie; Bera, Asim K; Kang, Alex; Cruz, Joshmyn De La; Levine, Paul M; Li, Xinting; Lamb, Mila; Gerben, Stacey R; Murray, Analisa; Heine, Piper; Korkmaz, Elif Nihal; Nivala, Jeff; Stewart, Lance; Watson, Joseph L; Rogers, Joseph M; Baker, David

De novo design of high-affinity binders of bioactive helical peptides Journal Article

In: Nature, 2023, ISSN: 1476-4687.

Abstract | Links | BibTeX

6.

Muratspahić, Edin; Deibler, Kristine; Han, Jianming; Tomašević, Nataša; Jadhav, Kirtikumar B; Olivé-Marti, Aina-Leonor; Hochrainer, Nadine; Hellinger, Roland; Koehbach, Johannes; Fay, Jonathan F; Rahman, Mohammad Homaidur; Hegazy, Lamees; Craven, Timothy W; Varga, Balazs R; Bhardwaj, Gaurav; Appourchaux, Kevin; Majumdar, Susruta; Muttenthaler, Markus; Hosseinzadeh, Parisa; Craik, David J; Spetea, Mariana; Che, Tao; Baker, David; Gruber, Christian W

Design and structural validation of peptide-drug conjugate ligands of the kappa-opioid receptor Journal Article

In: Nature Communications, 2023.

Abstract | Links | BibTeX

7.

Praetorius, Florian; Leung, Philip J. Y.; Tessmer, Maxx H.; Broerman, Adam; Demakis, Cullen; Dishman, Acacia F.; Pillai, Arvind; Idris, Abbas; Juergens, David; Dauparas, Justas; Li, Xinting; Levine, Paul M.; Lamb, Mila; Ballard, Ryanne K.; Gerben, Stacey R.; Nguyen, Hannah; Kang, Alex; Sankaran, Banumathi; Bera, Asim K.; Volkman, Brian F.; Nivala, Jeff; Stoll, Stefan; Baker, David

Design of stimulus-responsive two-state hinge proteins Journal Article

In: Science, 2023.

Abstract | Links | BibTeX

8.

Danny D. Sahtoe Enrico Rennella, David Baker; Kay, Lewis E.

Exploiting conformational dynamics to modulate the function of designed proteins Journal Article

In: Proceedings of the National Academy of Sciences, 2023.

Abstract | Links | BibTeX

9.

Watson, Paris R.; Gupta, Suchetana; Hosseinzadeh, Parisa; Brown, Benjamin P.; Baker, David; Christianson, David W.

Macrocyclic Octapeptide Binding and Inferences on Protein Substrate Binding to Histone Deacetylase 6 Journal Article

In: ACS Chemical Biology, 2023.

Abstract | Links | BibTeX

10.

Wu, Kejia; Bai, Hua; Chang, Ya-Ting; Redler, Rachel; McNally, Kerrie E.; Sheffler, William; Brunette, T. J.; Hicks, Derrick R.; Morgan, Tomos E.; Stevens, Tim J.; Broerman, Adam; Goreshnik, Inna; DeWitt, Michelle; Chow, Cameron M.; Shen, Yihang; Stewart, Lance; Derivery, Emmanuel; Silva, Daniel Adriano; Bhabha, Gira; Ekiert, Damian C.; Baker, David

De novo design of modular peptide-binding proteins by superhelical matching Journal Article

In: Nature, 2023.

Abstract | Links | BibTeX

11.

Justas Dauparas Amir Motmaen, Minkyung Baek

Peptide-binding specificity prediction using fine-tuned protein structure prediction networks Journal Article

In: Proceedings of the National Academy of Sciences, 2023.

Abstract | Links | BibTeX

12.

Praetorius, Florian; Leung, Philip J. Y.; Tessmer, Maxx H.; Broerman, Adam; Demakis, Cullen; Dishman, Acacia F.; Pillai, Arvind; Idris, Abbas; Juergens, David; Dauparas, Justas; Li, Xinting; Levine, Paul M.; Lamb, Mila; Ballard, Ryanne K.; Gerben, Stacey R.; Nguyen, Hannah; Kang, Alex; Sankaran, Banumathi; Bera, Asim K.; Volkman, Brian F.; Nivala, Jeff; Stoll, Stefan; Baker, David

Design of stimulus-responsive two-state hinge proteins Journal Article

In: Science, vol. 381, no. 6659, pp. 754-760, 2023.

Abstract | Links | BibTeX

13.

Said, Meerit Y.; Kang, Christine S.; Wang, Shunzhi; Sheffler, William; Salveson, Patrick J.; Bera, Asim K.; Kang, Alex; Nguyen, Hannah; Ballard, Ryanne; Li, Xinting; Bai, Hua; Stewart, Lance; Levine, Paul; Baker, David

Exploration of Structured Symmetric Cyclic Peptides as Ligands for Metal-Organic Frameworks Journal Article

In: Chemistry of Materials, 2022.

Abstract | Links | BibTeX

14.

Bhardwaj, Gaurav; O’Connor, Jacob; Rettie, Stephen; Huang, Yen-Hua; Ramelot, Theresa A.; Mulligan, Vikram Khipple; Alpkilic, Gizem Gokce; Palmer, Jonathan; Bera, Asim K.; Bick, Matthew J.; Piazza, Maddalena Di; Li, Xinting; Hosseinzadeh, Parisa; Craven, Timothy W.; Tejero, Roberto; Lauko, Anna; Choi, Ryan; Glynn, Calina; Dong, Linlin; Griffin, Robert; van Voorhis, Wesley C.; Rodriguez, Jose; Stewart, Lance; Montelione, Gaetano T.; Craik, David; Baker, David

Accurate de novo design of membrane-traversing macrocycles Journal Article

In: Cell, 2022.

Abstract | Links | BibTeX

15.

Macé, Kévin; Vadakkepat, Abhinav K.; Redzej, Adam; Lukoyanova, Natalya; Oomen, Clasien; Braun, Nathalie; Ukleja, Marta; Lu, Fang; Costa, Tiago R. D.; Orlova, Elena V.; Baker, David; Cong, Qian; Waksman, Gabriel

Cryo-EM structure of a type IV secretion system Journal Article

In: Nature, 2022.

Abstract | Links | BibTeX

16.

Levine, Paul M.; Craven, Timothy W.; Li, Xinting; Balana, Aaron T.; Bird, Gregory H.; Godes, Marina; Salveson, Patrick J.; Erickson, Patrick W.; Lamb, Mila; Ahlrichs, Maggie; Murphy, Michael; Ogohara, Cassandra; Said, Meerit Y.; Walensky, Loren D.; Pratt, Matthew R.; Baker, David

Generation of Potent and Stable GLP-1 Analogues Via “Serine Ligation” Journal Article

In: ACS Chemical Biology, 2022.

Abstract | Links | BibTeX

17.

Yao, Sicong; Moyer, Adam; Zheng, Yiwu; Shen, Yang; Meng, Xiaoting; Yuan, Chong; Zhao, Yibing; Yao, Hongwei; Baker, David; Wu, Chuanliu

De novo design and directed folding of disulfide-bridged peptide heterodimers Journal Article

In: Nature Communications, 2022.

Abstract | Links | BibTeX

18.

Hosseinzadeh, Parisa; Watson, Paris R.; Craven, Timothy W.; Li, Xinting; Rettie, Stephen; Pardo-Avila, Fátima; Bera, Asim K.; Mulligan, Vikram Khipple; Lu, Peilong; Ford, Alexander S.; Weitzner, Brian D.; Stewart, Lance J.; Moyer, Adam P.; Di Piazza, Maddalena; Whalen, Joshua G.; Greisen, Per Jr.; Christianson, David W.; Baker, David

Anchor extension: a structure-guided approach to design cyclic peptides targeting enzyme active sites Journal Article

In: Nature Communications, 2021.

Abstract | Links | BibTeX

19.

Mulligan, Vikram Khipple; Workman, Sean; Sun, Tianjun; Rettie, Stephen; Li, Xinting; Worrall, Liam J.; Craven, Timothy W.; King, Dustin T.; Hosseinzadeh, Parisa; Watkins, Andrew M.; Renfrew, P. Douglas; Guffy, Sharon; Labonte, Jason W.; Moretti, Rocco; Bonneau, Richard; Strynadka, Natalie C. J.; Baker, David

Computationally designed peptide macrocycle inhibitors of New Delhi metallo-β-lactamase 1 Journal Article

In: Proceedings of the National Academy of Sciences, vol. 118, no. 12, 2021.

Abstract | Links | BibTeX

20.

Quijano-Rubio, Alfredo; Yeh, Hsien-Wei; Park, Jooyoung; Lee, Hansol; Langan, Robert A.; Boyken, Scott E.; Lajoie, Marc J.; Cao, Longxing; Chow, Cameron M.; Miranda, Marcos C.; Wi, Jimin; Hong, Hyo Jeong; Stewart, Lance; Oh, Byung-Ha; Baker, David

De novo design of modular and tunable protein biosensors Journal Article

In: Nature, 2021.

Abstract | Links | BibTeX

76 entries « 1 of 4 »