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Chapin E. Cavender
Chapin E. Cavender
Open Force Field Initiative, University of California San Diego, Skaggs School of Pharmacy
Verified email at health.ucsd.edu - Homepage
Title
Cited by
Cited by
Year
Structure of HIV TAR in complex with a Lab-Evolved RRM provides insight into duplex RNA recognition and synthesis of a constrained peptide that impairs transcription
IA Belashov, DW Crawford, CE Cavender, P Dai, PC Beardslee, ...
Nucleic acids research 46 (13), 6401-6415, 2018
332018
Arginine forks are a widespread motif to recognize phosphate backbones and guanine nucleobases in the RNA major groove
SS Chavali, CE Cavender, DH Mathews, JE Wedekind
Journal of the American Chemical Society 142 (47), 19835-19839, 2020
292020
Analysis of a preQ1-I riboswitch in effector-free and bound states reveals a metabolite-programmed nucleobase-stacking spine that controls gene regulation
GM Schroeder, D Dutta, CE Cavender, JL Jenkins, EM Pritchett, CD Baker, ...
Nucleic acids research 48 (14), 8146-8164, 2020
262020
A small RNA that cooperatively senses two stacked metabolites in one pocket for gene control
GM Schroeder, CE Cavender, ME Blau, JL Jenkins, DH Mathews, ...
Nature Communications 13 (1), 199, 2022
212022
Pre-mRNA splicing factor U2AF2 recognizes distinct conformations of nucleotide variants at the center of the pre-mRNA splice site signal
E Glasser, D Maji, G Biancon, AMK Puthenpeedikakkal, CE Cavender, ...
Nucleic Acids Research 50 (9), 5299-5312, 2022
92022
Structure-based experimental datasets for benchmarking of protein simulation force fields
CE Cavender, DA Case, JCH Chen, LT Chong, DA Keedy, ...
arXiv preprint arXiv:2303.11056, 2023
42023
Isothermal Titration Calorimetry Analysis of a Cooperative Riboswitch Using an Interdependent-Sites Binding Model
CE Cavender, GM Schroeder, DH Mathews, JE Wedekind
RNA Structure and Dynamics, 53-73, 2022
22022
Development and benchmarking of an open, self-consistent force field for proteins and small molecules from the open force field initiative
CE Cavender, PK Behara, S Boothroyd, DL Dotson, JT Horton, JA Mitchell, ...
Biophysical Journal 122 (3), 421a, 2023
12023
Trafficking of excitatory amino acid transporter 2-laden vesicles in cultured astrocytes: A comparison between approximate and exact determination of trajectory angles
CE Cavender, MK Gottipati, V Parpura
Amino acids 47, 357-367, 2015
12015
Method for the determination of trajectory angles of directional secretory vesicles in cultured astrocytes
CE Cavender, MK Gottipati, EB Malarkey, V Parpura
Inquiro 7, 48, 2013
12013
Development and benchmarking of a self-consistent force field for proteins and small molecules from open force field
CE Cavender, PK Behara, DL Dotson, AJ Friedman, T Gokey, JT Horton, ...
Biophysical Journal 123 (3), 421a, 2024
2024
Discovery of a bacterial riboswitch class that binds metabolites in a stacked configuration for cooperative gene regulation
J Wedekind, G Schroeder, C Cavender, M Blau, D Mathews, J Jenkins
Acta Crystallographica Section A: Foundations and Advances 78, a25-a25, 2022
2022
Building an open, self-consistent force field for biopolymers and small molecules with the open force field initiative infrastructure
CE Cavender, PK Behara, S Boothroyd, DL Dotson, IJ Pulido, ...
Biophysical Journal 121 (3), 272a, 2022
2022
What the Fork? A Structural Bioinformatics Approach to Decipher Patterns in Arginine-Fork Mediated RNA Recognition
SS Chavali, CE Cavender, DH Mathews, JE Wedekind
Biophysical Journal 120 (3), 36a-37a, 2021
2021
Capturing the Influence of Solvent and Local Structure in a Fixed-Charge Force Field for RNA
CE Cavender
University of Rochester, 2021
2021
Capturing the Influence of Solvent and Neighboring Residues in a Fixed-Charge Force Field for RNA
CE Cavender, LG Smith, A Grossfield, DH Mathews
Biophysical Journal 118 (3), 68a, 2020
2020
Exploring Hydrogen Bond Geometry in RNA with F-SAPT
LG Smith, CE Cavender, A Grossfield, DH Mathews
Biophysical Journal 116 (3), 143a, 2019
2019
Developing an Accurate All-Atom Fixed-Charge Force Field for RNA with Implicitly Polarized Charges
CE Cavender, LG Smith, A Grossfield, DH Mathews
Biophysical Journal 116 (3), 353a, 2019
2019
Exploring Low-Energy Pathways that Interconvert the Apo and Bound States of a Metabolite-Sensing Gene-Regulatory RNA Switch
JE Wedekind, D Dutta, CE Cavender, AM DiCola, GM Schroeder, ...
Acta Crystallographica Section A: Foundations and Advances 75, a18-a18, 2019
2019
Conformational Dynamics of the HIV-1 Trans-Activation Response Element RNA Hairpin Bound to a Lab-Evolved Peptide
CE Cavender, IA Belashov, JE Wedekind, DH Mathews
Biophysical Journal 114 (3), 337a, 2018
2018
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