1RVH
SOLUTION STRUCTURE OF THE DNA DODECAMER GCAAAATTTTGC
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 1mM (in duplex)GCAAAATTTTGC, 25mM NH4Cl, 100% D2O or 90% H2O/10% D2O | either 100% D2O or 90% H2O/10% D2O | 25 mM NH4Cl | 6.0 | ambient | 288 | |
2 | 3D_13C-separated_NOESY | 2mM (in duplex) GCAAAATTTTGC U-13C,15N, 25mM NH4Cl | 100% D2O | 25 mM NH4Cl | 6.0 | ambient | 288 | |
3 | DQF-COSY | 1mM (in duplex)GCAAAATTTTGC, 25mM NH4Cl, 100% D2O or 90% H2O/10% D2O | either 100% D2O or 90% H2O/10% D2O | 25 mM NH4Cl | 6.0 | ambient | 288 | |
4 | 31P spin-echo diff CT-HSQC | 2mM (in duplex) GCAAAATTTTGC U-13C,15N, 25mM NH4Cl | 100% D2O | 25 mM NH4Cl | 6.0 | ambient | 288 | |
5 | spin-echo diff CH-HCCH | 2mM (in duplex) GCAAAATTTTGC U-13C,15N, 25mM NH4Cl | 100% D2O | 25 mM NH4Cl | 6.0 | ambient | 288 | |
6 | HSQC (with and without Pf1 phage) | 1mM (in duplex)GCAAAATTTTGC, 25mM NH4Cl, 100% D2O or 90% H2O/10% D2O | either 100% D2O or 90% H2O/10% D2O | 25 mM NH4Cl | 6.0 | ambient | 288 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 500 |
2 | Bruker | DRX | 600 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing, for details see (Padrta et al. (2002) J. Biomol. NMR 24, 1-24) | the structures are based on a total of 870 restraints, 586 are NOE-derived distance restraints, 160 torsion angle restraints, 24 pseudorotation phase angle restraints, 24 distance restraints from W-C hydrogen bonds. | Amber |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations,structures with the lowest energy |
Conformers Calculated Total Number | 30 |
Conformers Submitted Total Number | 9 |
Representative Model | 1 (lowest energy) |
Additional NMR Experimental Information | |
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Details | THIS STRUCTURE WAS DETERMINED USING RESIDUAL DIPOLAR COUPLINGS |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | Amber | 7.0 | CASE, D.A., et al. |