Detalhe da pesquisa
1.
Visualizing a two-state conformational ensemble in stem-loop 3 of the transcriptional regulator 7SK RNA.
Nucleic Acids Res
; 52(2): 940-952, 2024 Jan 25.
Artigo
em Inglês
| MEDLINE | ID: mdl-38084902
2.
Web-based platform for analysis of RNA folding from high throughput chemical probing data.
Nucleic Acids Res
; 50(W1): W266-W271, 2022 07 05.
Artigo
em Inglês
| MEDLINE | ID: mdl-35657086
3.
Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures.
Nat Methods
; 17(7): 699-707, 2020 07.
Artigo
em Inglês
| MEDLINE | ID: mdl-32616928
4.
RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers.
RNA
; 26(8): 982-995, 2020 08.
Artigo
em Inglês
| MEDLINE | ID: mdl-32371455
5.
Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation.
Proc Natl Acad Sci U S A
; 116(34): 16847-16855, 2019 08 20.
Artigo
em Inglês
| MEDLINE | ID: mdl-31375637
6.
Updates to the RNA mapping database (RMDB), version 2.
Nucleic Acids Res
; 46(D1): D375-D379, 2018 01 04.
Artigo
em Inglês
| MEDLINE | ID: mdl-30053264
7.
RNA structure inference through chemical mapping after accidental or intentional mutations.
Proc Natl Acad Sci U S A
; 114(37): 9876-9881, 2017 09 12.
Artigo
em Inglês
| MEDLINE | ID: mdl-28851837
8.
Structural conservation in the template/pseudoknot domain of vertebrate telomerase RNA from teleost fish to human.
Proc Natl Acad Sci U S A
; 113(35): E5125-34, 2016 08 30.
Artigo
em Inglês
| MEDLINE | ID: mdl-27531956
9.
An active site rearrangement within the Tetrahymena group I ribozyme releases nonproductive interactions and allows formation of catalytic interactions.
RNA
; 22(1): 32-48, 2016 Jan.
Artigo
em Inglês
| MEDLINE | ID: mdl-26567314
10.
RNA-Redesign: a web server for fixed-backbone 3D design of RNA.
Nucleic Acids Res
; 43(W1): W498-501, 2015 Jul 01.
Artigo
em Inglês
| MEDLINE | ID: mdl-25964298
11.
Primerize: automated primer assembly for transcribing non-coding RNA domains.
Nucleic Acids Res
; 43(W1): W522-6, 2015 Jul 01.
Artigo
em Inglês
| MEDLINE | ID: mdl-25999345
12.
Frequent side chain methyl carbon-oxygen hydrogen bonding in proteins revealed by computational and stereochemical analysis of neutron structures.
Proteins
; 83(3): 403-410, 2015 Mar.
Artigo
em Inglês
| MEDLINE | ID: mdl-25401519
13.
Conservation and functional importance of carbon-oxygen hydrogen bonding in AdoMet-dependent methyltransferases.
J Am Chem Soc
; 135(41): 15536-48, 2013 Oct 16.
Artigo
em Inglês
| MEDLINE | ID: mdl-24093804
14.
Assessing the quality of absolute hydration free energies among CHARMM-compatible ligand parameterization schemes.
J Comput Chem
; 34(11): 893-903, 2013 Apr 30.
Artigo
em Inglês
| MEDLINE | ID: mdl-23292859
15.
Automated 3D Design and Evaluation of RNA Nanostructures with RNAMake.
Methods Mol Biol
; 2586: 251-261, 2023.
Artigo
em Inglês
| MEDLINE | ID: mdl-36705909
16.
Visualizing a two-state conformational ensemble in stem-loop 3 of the transcriptional regulator 7SK RNA.
bioRxiv
; 2023 Aug 12.
Artigo
em Inglês
| MEDLINE | ID: mdl-37609139
17.
Direct evidence for methyl group coordination by carbon-oxygen hydrogen bonds in the lysine methyltransferase SET7/9.
J Biol Chem
; 286(21): 18658-63, 2011 May 27.
Artigo
em Inglês
| MEDLINE | ID: mdl-21454678
18.
MATCH: an atom-typing toolset for molecular mechanics force fields.
J Comput Chem
; 33(2): 189-202, 2012 Jan 15.
Artigo
em Inglês
| MEDLINE | ID: mdl-22042689
19.
Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells.
Nat Commun
; 13(1): 911, 2022 02 17.
Artigo
em Inglês
| MEDLINE | ID: mdl-35177610
20.
Predicting extreme pKa shifts in staphylococcal nuclease mutants with constant pH molecular dynamics.
Proteins
; 79(12): 3276-86, 2011 Dec.
Artigo
em Inglês
| MEDLINE | ID: mdl-22002886