SOLUTION STRUCTURE OF THE RNASE P RNA (M1 RNA) P4 STEM OLIGORIBONUCLEOTIDE, NMR, ENSEMBLE OF 9 STRUCTURES
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 2 mM P4 RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O | 90% H2O/10% D2O | 100 mM Na | 6.5 | ambient | 288 | |
| 2 | 2D NOESY | 2 mM P4 RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O | 99.96% D2O | 100 mM Na | 6.5 | ambient | 288 | |
| 3 | 2D NOESY | 2 mM P4 RNA; 100 mM sodium chloride; 10 mM magnesium chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O | 90% H2O/10% D2O | 100 mM Na, 10 mM Mg | 6.5 | ambient | 288 | |
| 4 | 2D NOESY | 2 mM P4 RNA; 100 mM sodium chloride; 3 mM hexammine cobalt chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O | 90% H2O/10% D2O | 100 mM Na, 3 mM Co(NH3)6 | 6.5 | ambient | 288 | |
| 5 | DQF-COSY | 2 mM P4 RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O | 99.96% D2O | 100 mM Na | 6.5 | ambient | 288 | |
| 6 | 31P-1H-COSY | 2 mM P4 RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O | 99.96% D2O | 100 mM Na | 6.5 | ambient | 288 | |
| 7 | 13C-1H-HMQC | 2 mM P4 RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O | 99.96% D2O | 100 mM Na | 6.5 | ambient | 288 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AMX | 600 |
| 2 | Bruker | DRX | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| restrained molecular dynamics; simulated annealing | The structures are based on a total of 266 NOE-derived distance constraints, 164 dihedral restraints and 48 distance restraints from hydrogen bonds. The nine structures with lowest NOE and dihedral angle violation energies are presented | XwinNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 50 |
| Conformers Submitted Total Number | 9 |
| Representative Model | 4 (closest to the average) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear techniques and 13C and 31P heteronuclear techniques at natural abundance |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 3.1 | Bruker |
| 2 | processing | Felix | 95 | MSI |
| 3 | structure solution | X-PLOR | 3.841 | Brunger |
| 4 | refinement | X-PLOR | 3.841 | Brunger |
