Solution structure of the nitrous acid (G)-(G) cross-linked DNA dodecamer duplex GCATCC(G)GATGC
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 1mM DNA, 10mM Phosphate pH 7.0, 200mM NaCl, 1mM EDTA | 200mM | 7.0 | 1 atm | 298 | ||
| 2 | DQF-COSY | 1mM DNA, 10mM Phosphate pH 7.0, 200mM NaCl, 1mM EDTA | 200mM | 7.0 | 1 atm | 298 | ||
| 3 | H-P HETCOR | 1mM DNA, 10mM Phosphate pH 7.0, 200mM NaCl, 1mM EDTA | 200mM | 7.0 | 1 atm | 298 | ||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DMX | 750 |
| 2 | Bruker | DRX | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| distance geometry, simulated annealing, molecular dynamics, relaxation matrix | The structures are based on a total of 715 distance restraints (560 are NOE-derived, 52 based on hydrogen bonding, 103 repulsive) and 178 dihedral angle restraints (106 backbone and 72 chiral). | XwinNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | back calculated data agree with experimental NOESY spectrum |
| Conformers Calculated Total Number | 40 |
| Conformers Submitted Total Number | 26 |
| Representative Model | 1 (n/a) |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was determined using standard 2D homonuclear techniques |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 1 | Bruker |
| 2 | processing | Felix | 1 | Hare |
| 3 | data analysis | Felix | 1 | Hare |
| 4 | structure solution | DGII | 1 | Biosym |
| 5 | structure solution | Discover | 1 | Biosym |
| 6 | iterative matrix relaxation | BIRDER | 1 | Zu |
| 7 | refinement | Discover | 1 | Biosym |
