Structure determination of noncanonical RNA motifs guided by 1 H NMR chemical shifts
Structured noncoding RNAs underlie fundamental cellular processes, but determining their three-dimensional structures remains challenging. We demonstrate that integrating 1H NMR chemical shift data with Rosetta de novo modeling can be used to consistently determine high-resolution RNA structures. On...
| Main Authors: | , , , , , , , , , , , , , , |
|---|---|
| Formato: | Journal article |
| Idioma: | English |
| Publicado em: |
Nature Publishing Group
2014
|
| _version_ | 1826257673108062208 |
|---|---|
| author | Sripakdeevong, P Cevec, M Chang, A Erat, M Ziegeler, M Zhao, Q Fox, G Gao, X Kennedy, S Kierzek, R Nikonowicz, E Schwalbe, H Sigel, R Turner, D Das, R |
| author_facet | Sripakdeevong, P Cevec, M Chang, A Erat, M Ziegeler, M Zhao, Q Fox, G Gao, X Kennedy, S Kierzek, R Nikonowicz, E Schwalbe, H Sigel, R Turner, D Das, R |
| author_sort | Sripakdeevong, P |
| collection | OXFORD |
| description | Structured noncoding RNAs underlie fundamental cellular processes, but determining their three-dimensional structures remains challenging. We demonstrate that integrating 1H NMR chemical shift data with Rosetta de novo modeling can be used to consistently determine high-resolution RNA structures. On a benchmark set of 23 noncanonical RNA motifs, including 11 'blind' targets, chemical-shift Rosetta for RNA (CS-Rosetta-RNA) recovered experimental structures with high accuracy (0.6-2.0 Å all-heavy-atom r.m.s. deviation) in 18 cases. © 2014 Nature America, Inc. All rights reserved. |
| first_indexed | 2024-03-06T18:21:52Z |
| format | Journal article |
| id | oxford-uuid:06919519-9954-4040-8d3d-50419bc6aeb6 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-06T18:21:52Z |
| publishDate | 2014 |
| publisher | Nature Publishing Group |
| record_format | dspace |
| spelling | oxford-uuid:06919519-9954-4040-8d3d-50419bc6aeb62022-03-26T09:03:14ZStructure determination of noncanonical RNA motifs guided by 1 H NMR chemical shiftsJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:06919519-9954-4040-8d3d-50419bc6aeb6EnglishSymplectic Elements at OxfordNature Publishing Group2014Sripakdeevong, PCevec, MChang, AErat, MZiegeler, MZhao, QFox, GGao, XKennedy, SKierzek, RNikonowicz, ESchwalbe, HSigel, RTurner, DDas, RStructured noncoding RNAs underlie fundamental cellular processes, but determining their three-dimensional structures remains challenging. We demonstrate that integrating 1H NMR chemical shift data with Rosetta de novo modeling can be used to consistently determine high-resolution RNA structures. On a benchmark set of 23 noncanonical RNA motifs, including 11 'blind' targets, chemical-shift Rosetta for RNA (CS-Rosetta-RNA) recovered experimental structures with high accuracy (0.6-2.0 Å all-heavy-atom r.m.s. deviation) in 18 cases. © 2014 Nature America, Inc. All rights reserved. |
| spellingShingle | Sripakdeevong, P Cevec, M Chang, A Erat, M Ziegeler, M Zhao, Q Fox, G Gao, X Kennedy, S Kierzek, R Nikonowicz, E Schwalbe, H Sigel, R Turner, D Das, R Structure determination of noncanonical RNA motifs guided by 1 H NMR chemical shifts |
| title | Structure determination of noncanonical RNA motifs guided by 1 H NMR chemical shifts |
| title_full | Structure determination of noncanonical RNA motifs guided by 1 H NMR chemical shifts |
| title_fullStr | Structure determination of noncanonical RNA motifs guided by 1 H NMR chemical shifts |
| title_full_unstemmed | Structure determination of noncanonical RNA motifs guided by 1 H NMR chemical shifts |
| title_short | Structure determination of noncanonical RNA motifs guided by 1 H NMR chemical shifts |
| title_sort | structure determination of noncanonical rna motifs guided by 1 h nmr chemical shifts |
| work_keys_str_mv | AT sripakdeevongp structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT cevecm structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT changa structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT eratm structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT ziegelerm structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT zhaoq structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT foxg structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT gaox structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT kennedys structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT kierzekr structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT nikonowicze structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT schwalbeh structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT sigelr structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT turnerd structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts AT dasr structuredeterminationofnoncanonicalrnamotifsguidedby1hnmrchemicalshifts |