Joseph D. Yesselman
Cited by
Cited by
MATCH: An atom‐typing toolset for molecular mechanics force fields
JD Yesselman, DJ Price, JL Knight, CL Brooks III
Journal of Computational Chemistry, 2011
Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures
K Kappel, K Zhang, Z Su, AM Watkins, W Kladwang, S Li, G Pintilie, ...
Nature methods 17 (7), 699-707, 2020
Conservation and functional importance of carbon–oxygen hydrogen bonding in AdoMet-dependent methyltransferases
S Horowitz, LMA Dirk, JD Yesselman, JS Nimtz, U Adhikari, RA Mehl, ...
Journal of the American Chemical Society 135 (41), 15536-15548, 2013
RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers
Z Miao, RW Adamiak, M Antczak, MJ Boniecki, J Bujnicki, SJ Chen, ...
Rna 26 (8), 982-995, 2020
High-throughput investigation of diverse junction elements in RNA tertiary folding
SK Denny, N Bisaria, JD Yesselman, R Das, D Herschlag, WJ Greenleaf
Cell 174 (2), 377-390. e20, 2018
Direct evidence for methyl group coordination by CH··· O hydrogen bonds in SET domain methyltransferases
S Horowitz, JD Yesselman, HM Al-Hashimi, RC Trievel
Journal of Biological Chemistry, 2011
Computational design of three-dimensional RNA structure and function
JD Yesselman, D Eiler, ED Carlson, MR Gotrik, AE d’Aquino, AN Ooms, ...
Nature nanotechnology 14 (9), 866-873, 2019
RNA structure inference through chemical mapping after accidental or intentional mutations
CY Cheng, W Kladwang, JD Yesselman, R Das
Proceedings of the National Academy of Sciences 114 (37), 9876-9881, 2017
Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction
H Shi, A Rangadurai, H Abou Assi, R Roy, DA Case, D Herschlag, ...
Nature communications 11 (1), 5531, 2020
Predicting extreme pKa shifts in staphylococcal nuclease mutants with constant pH molecular dynamics
EJ Arthur, JD Yesselman, CL Brooks III
Proteins: Structure, Function, and Bioinformatics, 2011
Frequent side chain methyl carbon‐oxygen hydrogen bonding in proteins revealed by computational and stereochemical analysis of neutron structures
JD Yesselman, S Horowitz, CL Brooks III, RC Trievel
Proteins: Structure, Function, and Bioinformatics 83 (3), 403-410, 2015
Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation
JD Yesselman, SK Denny, N Bisaria, D Herschlag, WJ Greenleaf, R Das
Proceedings of the National Academy of Sciences 116 (34), 16847-16855, 2019
Primerize: automated primer assembly for transcribing non-coding RNA domains
S Tian, JD Yesselman, P Cordero, R Das
Nucleic acids research 43 (W1), W522-W526, 2015
Assessing the quality of absolute hydration free energies among CHARMM‐compatible ligand parameterization schemes
JL Knight, JD Yesselman, CL Brooks III
Journal of computational chemistry 34 (11), 893-903, 2013
Amilorides inhibit SARS-CoV-2 replication in vitro by targeting RNA structures
M Zafferani, C Haddad, L Luo, J Davila-Calderon, LY Chiu, CS Mugisha, ...
Science advances 7 (48), eabl6096, 2021
Structural conservation in the template/pseudoknot domain of vertebrate telomerase RNA from teleost fish to human
Y Wang, JD Yesselman, Q Zhang, M Kang, J Feigon
Proceedings of the National Academy of Sciences 113 (35), E5125-E5134, 2016
Updates to the RNA mapping database (RMDB), version 2
JD Yesselman, S Tian, X Liu, L Shi, JB Li, R Das
Nucleic Acids Research 46 (D1), D375-D379, 2018
Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells
R Van Damme, K Li, M Zhang, J Bai, WH Lee, JD Yesselman, Z Lu, ...
Nature Communications 13 (1), 911, 2022
Modeling small noncanonical RNA motifs with the Rosetta FARFAR server
JD Yesselman, R Das
RNA Structure Determination: Methods and Protocols, 187-198, 2016
An active site rearrangement within the Tetrahymena group I ribozyme releases nonproductive interactions and allows formation of catalytic interactions
RN Sengupta, SNS Van Schie, G Giambaşu, Q Dai, JD Yesselman, ...
RNA 22 (1), 32-48, 2016
The system can't perform the operation now. Try again later.
Articles 1–20