Structure of a parallel c-myc modified with 5' duplex stem-loop and 3' diagonal snap-back loop
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-13C HSQC aromatic | 0.25 mM 0 nucleic acid | 90% H2O/10% D2O | 10 mM | 7.0 | 1 atm | 293 | Bruker AVANCE NEO 600 |
| 2 | 2D 1H-1H NOESY | 0.62 mM 0 nucleic acid | 90% H2O/10% D2O | 10 mM | 7.0 | 1 atm | 293 | Bruker AVANCE NEO 600 |
| 3 | 2D DQF-COSY | 0.25 mM 0 nucleic acid | 90% H2O/10% D2O | 10 mM | 7.0 | 1 atm | 293 | Bruker AVANCE NEO 600 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE NEO | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | Amber | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | all calculated structures submitted |
| Conformers Calculated Total Number | 10 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | chemical shift assignment | CcpNmr Analysis | 2.4.2 | CCPN |
| 2 | structure calculation | X-PLOR NIH | 2.52 | Schwieters, Kuszewski, Tjandra and Clore |
| 3 | data analysis | CcpNmr Analysis | 2.4.2 | CCPN |
| 4 | peak picking | CcpNmr Analysis | 2.4.2 | CCPN |
| 5 | processing | TopSpin | 4.0.7 | Bruker Biospin |
| 6 | refinement | Amber | 16 | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman |
