SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | NOESY | 76 mM | 6.8 | 1 atm | 288 | |||
| 2 | ROESY | 76 mM | 6.8 | 1 atm | 288 | |||
| 3 | TOCSY | 76 mM | 6.8 | 1 atm | 288 | |||
| 4 | 2D EXCHANGE-ONLY SPECTRA | 76 mM | 6.8 | 1 atm | 288 | |||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | UNITYPLUS | 750 |
| 2 | Varian | UNITYPLUS | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| RELAXATION MATRIX REFINEMENT OF NOE DISTANCE RESTRAINTS AND RESTRAINED MOLECULAR DYNAMICS WITH SIMULATED ANNEALING | THE FOLLOWING RESTRAINTS WERE APPLIED IN THE MOLECULAR DYNAMICS/ENERGY MINIMIZATION CALCULATIONS: (1) INTER-PROTON DISTANCE RESTRAINTS DIRECTLY DERIVED FROM RELAXATION MATRIX ANALYSIS OF NOE DATA; (2) IMINO PROTON HYDROGEN BOND RESTRAINTS FOR ALL BASE PAIRS EXCEPT THE CENTRAL DA-DG MISMATCH PAIR. THE MODIFIED DA RESIDUE OF THIS MINOR CONFORMER DISPLAYED A C2'-ENDO SUGAR PUCKER AND AN ANTI GLYCOSIDIC BOND. IT FORMED AN ANTI:ANTI BASE PAIR CONTAINING TWO HYDROGEN BONDS WITH THE OPPOSITE DG. THE MODIFIED DA RESIDUE OF THE MAJOR CONFORMER OF THIS MOLECULE [YEH ET AL. (1995) BIOCHEMISTRY 34, 13570-13581] DISPLAYED C3'-ENDO SUGAR PUCKER AND A SYN GLYCOSIDIC BOND. THE MAJOR CONFORMER MODIFIED DA RESIDUE FORMED A SYN:ANTI BASE PAIR CONTAINING NON-WATSON CRICK HYDROGEN BONDS WITH THE OPPOSITE DG. MORE REFINEMENT DETAILS CAN BE FOUND IN THE PRIMARY JOURNAL CITATION (SCHWARTZ ET AL.,1997). | Amber |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | |
| Conformers Calculated Total Number | 1 |
| Conformers Submitted Total Number | 1 |
| Representative Model | 1 (minimized average structure) |
| Additional NMR Experimental Information | |
|---|---|
| Details | MINIMIZED AVERAGE STRUCTURE. THE STRUCTURE WAS DETERMINED USING DISTANCE RESTRAINTS DERIVED FROM 2D NOESY EXPERIMENTS DONE IN 99.999% D2O AND 90% H2O/ 10% D2O. 2D ROESY, TOCSY, AND EXCHANGE-ONLY EXPERIMENTS WERE USED IN THE CHEMICAL SHIFT ASSIGNMENT PROCESS. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | refinement | Amber | 4.1 | PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM, FERGUSON,SEIBEL,SINGH,WEINER,KOLLMAN |
| 2 | structure calculation | MORASS | 2.2 | Luxon |
| 3 | structure calculation | Amber | 4.1 | PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM, FERGUSON,SEIBEL,SINGH,WEINER,KOLLMAN |
