SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 2mM 110C DNA; 10mM phosphate buffer pH 6.5; 150mM NaCl; | 90% H2O/10% D2O | 150mM NaCl | 6.5 | ambient | 278 | |
| 2 | 2D NOESY | 2mM 110C DNA; 10mM phosphate buffer pH 6.5; 150mM NaCl; | 100% D2O | 150mM NaCl | 6.5 | ambient | 298 | |
| 3 | 2D TOCSY | 2mM 110C DNA; 10mM phosphate buffer pH 6.5; 150mM NaCl; | 100% D2O | 150mM NaCl | 6.5 | ambient | 298 | |
| 4 | DQF-COSY | 2mM 110C DNA; 10mM phosphate buffer pH 6.5; 150mM NaCl; | 100% D2O | 150mM NaCl | 6.5 | ambient | 298 | |
| 5 | HMQC | 1mM 110C DNA; 10mM phosphate buffer pH 6.5; 150mM NaCl; , 13C8 and 15N6 and 15N9 of A12 and A15 | 100% D2O | 150mM NaCl | 6.5 | ambient | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| minimization molecular dynamics | Structure is derived from 191 NOES of which, 25 involve exchangeable protons in the stem, 153 NOEs involve non-exchangeable protons in the stem, 13 NOEs involve non-exchangeable protons in the loop, 50 Distance restraints involve hydrogen bonds, and 44 dihedral angle restraints. | Felix |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | Submitted conformers include average from molecular dynamics and 3 representative diverging structures. |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 4 |
| Representative Model | 1 (minimized average structure) |
| Additional NMR Experimental Information | |
|---|---|
| Details | The structure was determined using standard 2D homonuclear techniques. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | data analysis | Felix | 98 | Biosym |
| 2 | structure solution | Amber | 4.1 | Pearlman, D.A., Case, D.A., Caldwell, J.W., Ross, W.S., Cheatham, T.E., Ferguson, D.M., Seibel, G.L., Singh, U.C., Weiner, P.K., and Kollman, P.A. |
| 3 | refinement | Amber | 4.1 | Pearlman, D.A., Case, D.A., Caldwell, J.W., Ross, W.S., Cheatham, T.E., Ferguson, D.M., Seibel, G.L., Singh, U.C., Weiner, P.K., and Kollman, P.A. |
