Follow
Kalli Kappel
Kalli Kappel
HHMI Hanna Gray Fellow, Broad Institute of MIT and Harvard
Verified email at broadinstitute.org
Title
Cited by
Cited by
Year
The Rosetta all-atom energy function for macromolecular modeling and design
RF Alford, A Leaver-Fay, JR Jeliazkov, MJ O’Meara, FP DiMaio, H Park, ...
Journal of chemical theory and computation 13 (6), 3031-3048, 2017
12712017
Macromolecular modeling and design in Rosetta: recent methods and frameworks
JK Leman, BD Weitzner, SM Lewis, J Adolf-Bryfogle, N Alam, RF Alford, ...
Nature methods 17 (7), 665-680, 2020
5802020
RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme
Z Miao, RW Adamiak, M Antczak, RT Batey, AJ Becka, M Biesiada, ...
RNA 23 (5), 655-672, 2017
1842017
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
1432020
A unified mechanism for intron and exon definition and back-splicing
X Li, S Liu, L Zhang, A Issaian, RC Hill, S Espinosa, S Shi, Y Cui, ...
Nature 573 (7774), 375-380, 2019
1432019
Accelerated molecular dynamics simulations of ligand binding to a muscarinic G-protein-coupled receptor
K Kappel, Y Miao, JA McCammon
Quarterly reviews of biophysics 48 (4), 479-487, 2015
1422015
Cryo-EM structure of a 40 kDa SAM-IV riboswitch RNA at 3.7 resolution
K Zhang*, S Li*, K Kappel*, G Pintilie, Z Su, TC Mou, MF Schmid, R Das, ...
Nature Communications 10 (1), 1-6, 2019
1142019
Cryo-EM structures of full-length Tetrahymena ribozyme at 3.1 resolution
Z Su*, K Zhang*, K Kappel*, S Li, MZ Palo, GD Pintilie, R Rangan, B Luo, ...
Nature, 1-5, 2021
652021
A quantitative and predictive model for RNA binding by human Pumilio proteins
I Jarmoskaite, SK Denny, PP Vaidyanathan, WR Becker, JOL Andreasson, ...
Molecular cell 74 (5), 966-981. e18, 2019
642019
Architecture of an HIV-1 reverse transcriptase initiation complex
KP Larsen, YK Mathiharan, K Kappel, AT Coey, DH Chen, D Barrero, ...
Nature 557 (7703), 118-122, 2018
602018
De novo computational RNA modeling into cryo-EM maps of large ribonucleoprotein complexes
K Kappel, S Liu, KP Larsen, G Skiniotis, EV Puglisi, JD Puglisi, ZH Zhou, ...
Nature methods 15 (11), 947-954, 2018
552018
The binding mechanism, multiple binding modes, and allosteric regulation of Staphylococcus aureus Sortase A probed by molecular dynamics simulations
K Kappel, J Wereszczynski, RT Clubb, JA McCammon
Protein science 21 (12), 1858-1871, 2012
462012
Sampling native-like structures of RNA-protein complexes through Rosetta folding and docking
K Kappel, R Das
Structure 27 (1), 140-151. e5, 2019
452019
Blind tests of RNA nearest-neighbor energy prediction
FC Chou, W Kladwang, K Kappel, R Das
Proceedings of the National Academy of Sciences 113 (30), 8430-8435, 2016
322016
Single-molecule FRET-Rosetta reveals RNA structural rearrangements during human telomerase catalysis
JW Parks*, K Kappel*, R Das, MD Stone
RNA 23 (2), 175-188, 2017
312017
RNA 3D structure prediction guided by independent folding of homologous sequences
M Magnus, K Kappel, R Das, JM Bujnicki
BMC bioinformatics 20, 1-15, 2019
302019
Blind tests of RNA–protein binding affinity prediction
K Kappel, I Jarmoskaite, PP Vaidyanathan, WJ Greenleaf, D Herschlag, ...
Proceedings of the National Academy of Sciences 116 (17), 8336-8341, 2019
242019
Structure of the OMEGA nickase IsrB in complex with ωRNA and target DNA
S Hirano*, K Kappel*, H Altae-Tran, G Faure, ME Wilkinson, S Kannan, ...
Nature, 1-7, 2022
152022
Topological crossing in the misfolded Tetrahymena ribozyme resolved by cryo-EM
S Li, MZ Palo, G Pintilie, X Zhang, Z Su, K Kappel, W Chiu, K Zhang, ...
Proceedings of the National Academy of Sciences 119 (37), e2209146119, 2022
142022
Learning cis-regulatory principles of ADAR-based RNA editing from CRISPR-mediated mutagenesis
X Liu, T Sun, A Shcherbina, Q Li, I Jarmoskaite, K Kappel, G Ramaswami, ...
Nature Communications 12 (1), 2165, 2021
102021
The system can't perform the operation now. Try again later.
Articles 1–20