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Use of evolutionary information in the fitting of atomic level protein models in low resolution cryo-EM map of a protein assembly improves the accuracy of the fitting.

Joseph, Agnel P; Swapna, Lakshmipuram S; Rakesh, Ramachandran; Srinivasan, Narayanaswamy.

J Struct Biol ; 195(3): 294-305, 2016 09.

Artículo en Inglés | MEDLINE | ID: mdl-27444391

Structural and mechanistic insights into human splicing factor SF3b complex derived using an integrated approach guided by the cryo-EM density maps.

Rakesh, Ramachandran; Joseph, Agnel Praveen; Bhaskara, Ramachandra M; Srinivasan, Narayanaswamy.

RNA Biol ; 13(10): 1025-1040, 2016 10 02.

Artículo en Inglés | MEDLINE | ID: mdl-27618338

Reversible phosphorylation of cyclin T1 promotes assembly and stability of P-TEFb.

Huang, Fang; Nguyen, Trang Tt; Echeverria, Ignacia; Rakesh, Ramachandran; Cary, Daniele C; Paculova, Hana; Sali, Andrej; Weiss, Arthur; Peterlin, Boris Matija; Fujinaga, Koh.

Elife ; 102021 11 25.

Artículo en Inglés | MEDLINE | ID: mdl-34821217

Recognition of a structural domain (RWDBD) in Gcn1 proteins that interacts with the RWD domain containing proteins.

Rakesh, Ramachandran; Krishnan, Rangachari; Sattlegger, Evelyn; Srinivasan, Narayanaswamy.

Biol Direct ; 12(1): 12, 2017 05 19.

Artículo en Inglés | MEDLINE | ID: mdl-28526057

Improving the Accuracy of Fitted Atomic Models in Cryo-EM Density Maps of Protein Assemblies Using Evolutionary Information from Aligned Homologous Proteins.

Rakesh, Ramachandran; Srinivasan, Narayanaswamy.

Methods Mol Biol ; 1415: 193-209, 2016.

Artículo en Inglés | MEDLINE | ID: mdl-27115634

A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing

David E. Gordon; Gwendolyn M. Jang; Mehdi Bouhaddou; Jiewei Xu; Kirsten Obernier; Jeffrey Z. Guo; Danielle L. Swaney; Tia A. Tummino; Ruth Huttenhain; Robyn M. Kaake; Alicia L. Richards; Beril Tutuncuoglu; Helene Foussard; Jyoti Batra; Kelsey Haas; Maya Modak; Minkyu Kim; Paige Haas; Benjamin J. Polacco; Hannes Braberg; Jacqueline M. Fabius; Manon Eckhardt; Margaret Soucheray; Melanie J. Bennett; Merve Cakir; Michael J. McGregor; Qiongyu Li; Zun Zar Chi Naing; Yuan Zhou; Shiming Peng; Ilsa T. Kirby; James E. Melnyk; John S Chorba; Kevin Lou; Shizhong A. Dai; Wenqi Shen; Ying Shi; Ziyang Zhang; Inigo Barrio-Hernandez; Danish Memon; Claudia Hernandez-Armenta; Christopher J.P. Mathy; Tina Perica; Kala B. Pilla; Sai J. Ganesan; Daniel J. Saltzberg; Rakesh Ramachandran; Xi Liu; Sara B. Rosenthal; Lorenzo Calviello; Srivats Venkataramanan; Jose Liboy-Lugo; Yizhu Lin; Stephanie A. Wankowicz; Markus Bohn; Phillip P. Sharp; Raphael Trenker; Janet M. Young; Devin A. Cavero; Joseph Hiatt; Theo Roth; Ujjwal Rathore; Advait Subramanian; Julia Noack; Mathieu Hubert; Ferdinand Roesch; Thomas Vallet; Björn Meyer; Kris M. White; Lisa Miorin; Oren S. Rosenberg; Kliment A. Verba; David Agard; Melanie Ott; Michael Emerman; Davide Ruggero; Adolfo Garcí-Sastre; Natalia Jura; Mark von Zastrow; Jack Taunton; Alan Ashworth; Olivier Schwartz; Marco Vignuzzi; Shaeri Mukherjee; Matt Jacobson; Harmit S. Malik; Danica G Fujimori; Trey Ideker; Charles S Craik; Stephen Floor; James S. Fraser; John Gross; Andrej Sali; Tanja Kortemme; Pedro Beltrao; Kevan Shokat; Brian K. Shoichet; Nevan J. Krogan.

Preprint en Inglés | PREPRINT-BIORXIV | ID: ppbiorxiv-002386

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