Solution structure of the nitrous acid induced DNA interstrand cross-linked dodecamer duplex CGCTAC(G)TAGCG with the cross-linked guanines denoted (G)
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 | 100% D2O | 200mM | 7.0 | ambient | 298 | |
| 2 | DQF-COSY | 1mM DNA, 10mM phosphate pH 7.0, 200mM NaCl, 1mM EDTA | 90% H2O/10% D2O | 200mM | 7.0 | ambient | 298 | |
| 3 | 1H-31P HETCOR | 200mM | 7.0 | ambient | 298 | |||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DMX | 750 |
| 2 | Bruker | DRX | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| distance geometry, molecular dynamics, matrix relaxation | the structures are based on a total of 647 distance restraints (514 are NOE-derived, 42 from hydrogen bonding, 81 repulsive) and 176 dihedral angle restraints (104 backbone, 72 chiral). | XwinNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | back calculated data agree with experimental NOESY spectrum |
| Conformers Calculated Total Number | 20 |
| Conformers Submitted Total Number | 12 |
| 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 | 97 | Zhu |
| 7 | refinement | Discover | 1 | Biosym |
