The Solution Structure of the Loop E Region of the 5S rRNA from Spinach Chloroplasts.
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | (NOESY, HSQC for imino/amino assignments) | RNA molecule (1mM-2mM) in 50 mM NaCl, 2.5mM Cacodylate, 0.1mM EDTA, pH 6.0 | H2O, D2O | 50mM | 6.0 | 1 atm | 298 | |
| 2 | (NOESY, DQF-COSY, HSQC, NOESY-HMQC, HCcH COSY, etc. See paper for more details.) | RNA molecule (1mM-2mM) in 50 mM NaCl, 2.5mM Cacodylate, 0.1mM EDTA, pH 6.0 | H2O, D2O | 50mM | 6.0 | 1 atm | 278 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 500 |
| 2 | Varian | UNITYPLUS | 600 |
| 3 | Varian | INOVA | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| torsion angle dynamics, molecular dynamics | Distance, Dihedral, Planarity restraints were used in the first round, followed by dipolar couplings in the second round (See paper for details) | Felix |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations,structures with the lowest energy |
| Conformers Calculated Total Number | 65 |
| Conformers Submitted Total Number | 13 |
| Representative Model | 1 (minimized average structure) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using data obtained from homonuclear and heteronuclear experiments. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | Felix | 95 | MSI |
| 2 | refinement | CNS | 1.0 | Brunger, Adams, Clore, Delano, Gros, Grosse-Kunstleve, Jiang, Kuszewski, Nilges, Pannu, Read, Rice, Simonson, Warren |
| 3 | data analysis | Sparky | 3.0 | Goddard and Kneller |
