Major G-quadruplex structure formed in human c-MYC promoter, a monomeric parallel-stranded quadruplex
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 0.2-3mM DNA oligonucleotides, 25mM potassium-phosphate,70mM potassium-chloride,pH7.0 buffer | 10% D2O/90% H2O | 25mM potassium-phosphate,70mM potassium-chloride | 7.0 | ambient | 298 | |
| 2 | 2D NOESY | 0.2-3mM DNA oligonucleotides, 25mM potassium-phosphate,70mM potassium-chloride,pH7.0 buffer | 99.96% D2O | 25mM potassium-phosphate,70mM potassium-chloride | 7.0 | ambient | 298 | |
| 3 | 2D TOCSY | 0.2-3mM DNA oligonucleotides, 25mM potassium-phosphate,70mM potassium-chloride,pH7.0 buffer | 99.96% D2O | 25mM potassium-phosphate,70mM potassium-chloride | 7.0 | ambient | 298 | |
| 4 | DQF-COSY | 0.2-3mM DNA oligonucleotides, 25mM potassium-phosphate,70mM potassium-chloride,pH7.0 buffer | 99.96% D2O | 25mM potassium-phosphate,70mM potassium-chloride | 7.0 | ambient | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| molecular dynamics | XwinNMR | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 200 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (fewest violations) |
| Additional NMR Experimental Information | |
|---|---|
| Details | Constraints for structure calculations were collected from standard homonuclear NMR experiments. Site-specific imino-assignments were obtained from 1D HMQC with presaturation. 2D NOESY in water used jump-and-return solvent suppression. The average RMSD is 0.880531. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 3.5 | |
| 2 | data analysis | Sparky | 3.1 | Goddard,T.D., Kneller,D.G. |
| 3 | refinement | Insight II | 2000L | |
