HYPERMODIFIED NUCLEOSIDES IN THE ANTICODON OF TRNALYS STABILIZE A CANONICAL U-TURN STRUCTURE
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 1.5mM natural abundance RNA; 10mM phosphate buffer; 50mM KCl; 50mM NaCl; 10mM MgCl2 | 90% H2O/10% D2O | 120mM | 7 | ambient | 285 | |
| 2 | 2D NOESY | 1.5mM natural abundance RNA; 10mM phosphate buffer; 50mM KCl; 50mM NaCl; 10mM MgCl2 | 90% H2O/10% D2O | 120mM | 7 | ambient | 303 | |
| 3 | DQF-COSY | 1.5mM natural abundance RNA; 10mM phosphate buffer; 50mM KCl; 50mM NaCl; 10mM MgCl2 | 90% H2O/10% D2O | 120mM | 7 | ambient | 303 | |
| 4 | 1H-31P-COSY | 1.5mM natural abundance RNA; 10mM phosphate buffer; 50mM KCl; 50mM NaCl; 10mM MgCl2 | 90% H2O/10% D2O | 120mM | 7 | ambient | 303 | |
| 5 | 1H-31P-hetero-TOCSY-TOCSY | 1.5mM natural abundance RNA; 10mM phosphate buffer; 50mM KCl; 50mM NaCl; 10mM MgCl2 | 90% H2O/10% D2O | 120mM | 7 | ambient | 303 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | UNITYPLUS | 600 |
| 2 | Varian | UNITY | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| used H5-H6 distances for distance calculations then simulated annealing/molecular dynamics in vacuo then restrained minimization in vacuo | 123 NOE-derived restraints, 15 hydrogen bond restraints, 102 lower/upper bound restraints, 161 dihedral restraints, 68 chiral restraints | VNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 35 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 4 (closest to the average,lowest energy) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear techniques and standard 1H-31P 2D correlation experiments. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | VNMR | 6.1B | Varian |
| 2 | processing | VNMR | 6.1B | Varian |
| 3 | data analysis | VNMR | 6.1B | Varian |
| 4 | processing | Felix | MSI | |
| 5 | data analysis | Felix | MSI | |
| 6 | structure solution | Discover | MSI | |
| 7 | refinement | Discover | MSI | |
