1JRV
SOLUTION STRUCTURE OF DAATAA DNA BULGE
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D_NOESY | 1.6MM IN DUPLEX; 10MM PHOSPHATE BUFFER; 100MM NACL; 0.05MM EDTA; 100% D2O | 100% D2O | 100mm Na+ | 7 | ambient | 300 | |
| 2 | E-COSY | 1.6MM IN DUPLEX; 10MM PHOSPHATE BUFFER; 100MM NACL; 0.05MM EDTA; 100% D2O | 100% D2O | 100mm Na+ | 7 | ambient | 300 | |
| 3 | 31P-1H_correlated | 1.6MM IN DUPLEX; 100MM NACL; 0.05MM EDTA; 100% D2O | 100% D2O | 100mm Na+ | 7 | ambient | 300 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| 2 | Varian | INOVA | 500 |
| 3 | Varian | INOVA | 750 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| matrix relaxation (MARDIGRAS); torsion angle dynamics (DYANA); ENERGY MINIMIZATION (AMBER) | the structures are based on a total of 906 restraints, 645 are NOE-derived distance constraints, 235 dihedral angle restraints, 26 distance restraints from hydrogen bonds. | NMRPipe |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | target function |
| Conformers Calculated Total Number | 400 |
| Conformers Submitted Total Number | 15 |
| Representative Model | 1 (lowest energy) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear and heteronuclear techniques |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | processing | NMRPipe | 3 | Delaglio, F. et al. |
| 2 | iterative matrix relaxation | MARDIGRAS | 3.2 | Borgias, B.A. & James, T.L. |
| 3 | structure solution | DYANA | 1.5 | Gntert, P., Mumenthaler, C., Wthrich, K. |
| 4 | refinement | Amber | 5.0 | Weiner, S.j., Kollman, P.A., Nguyen, D.T., Case, D.A. |
| 5 | data analysis | Curves | 4.0 | Sklenar, H., Lavery, R. |
| 6 | data analysis | Amber | 5.0 | Weiner, S.j., Kollman, P.A., Nguyen, D.T., Case, D.A. |
