1DRR
DNA/RNA HYBRID DUPLEX CONTAINING A PURINE-RICH DNA STRAND, NMR, 10 STRUCTURES
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | NOESY | 7.0 | 303 | |||||
| 2 | COSY | 7.0 | 303 | |||||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | UNITY | 500 |
| 2 | Varian | UNITYPLUS | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | DISTANCE CONSTRAINTS FOR GLYCOSIDIC TORSION ANGLES, PENTOSE PSEUDOROTATIONAL PHASE ANGLES/AMPLITUDES AND FRACTION OF SOUTH STATE SUGARS CALCULATED FROM NOE BUILD-UP CURVES AND COUPLING CONSTANTS BY A LEAST-SQUARES/GRID SEARCH METHOD IMPLEMENTED IN NUCFIT AND PFIT (A.N. LANE, NIMR, UK). TEN DIFFERENT SETS OF UNIQUE RESTRAINTS GENERATED 10 STRUCTURES, THE AVERAGE OF WHICH SATISFIED THE EXPERIMENTALLY DERIVED FRACTION OF SOUTH STATE SUGARS BETTER STRUCTURES GENERATED FROM A SINGLE SET OF RESTRAINTS. INTERNU CLEOTIDE DISTANCE CONSTRAINTS CALCULATED FROM NOE-BUILD-UP CURVES. STRUCTURES CALCULATED BY SIMULATED ANNEALING/RMD PROTOCOL WITHIN DISCOVER 95.0 USING AN AMBER FORCE FIELD AND A DISTANCE DIELECTRIC CONSTANT. | Discover |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | LOWEST POTENTIAL ENERGY, MINIMAL VIOLATIONS AND ACCEPTABLE STEREOCHEMISTRY |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 10 |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | refinement | Discover | 95.0 | MOLECULAR SIMULATIONS INC. |
| 2 | structure solution | Felix | 95.0 | |
| 3 | structure solution | NUCFIT | ||
| 4 | structure solution | pfit | ||
| 5 | structure solution | Discover | 95.0 | |
