1XHP
Solution Structure of the Extended U6 ISL as Observed in the U2/U6 complex from Saccharomyces cerevisiae
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 1mM extended U6 ISL RNA; 90% H2O; 10% D2O | 90% H2O/10% D2O | 6.9 | 283 | |||
2 | 2D NOESY | 1mM extended U6 ISL RNA; 99.99% D2O | 99.99% D2O | 7.5 | 303 | |||
3 | 2D TOCSY | 1mM extended U6 ISL RNA; 99.99% D2O | 99.99% D2O | 7.5 | 303 | |||
4 | 3D_13C-separated_NOESY | 1mM 13C,15N labeled extended U6 ISL RNA; 99.99% D2O | 99.99% D2O | 7.5 | 303 | |||
5 | 3D [1H-13C-1H] HCCH-TOCSY | 1mM 13C,15N labeled extended U6 ISL RNA; 99.99% D2O | 99.99% D2O | 7.5 | 303 | |||
6 | 3D [1H-13C-1H] HCCH -COSY | 1mM 13C,15N labeled extended U6 ISL RNA; 99.99% D2O | 99.99% D2O | |||||
7 | 2D [15N-1H] HNN-COSY | 1mM 13C,15N labeled extended U6 ISL RNA; 90% H2O; 10% D2O | 90% H2O/10% D2O | 6.9 | 298 | |||
8 | J-modulated [13C-1H] CT-HSQC | 1mM 13C,15N labeled extended U6 ISL RNA; 17 mg/ml pf1 bacteriophage; 90% H2O; 10% D2O | 90% H2O/10% D2O | 7.5 | 303 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 600 |
2 | Bruker | DMX | 750 |
3 | Varian | INOVA | 600 |
4 | Varian | INOVA | 800 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing, torsion angle dynamics, molecular dynamics, residual dipolar couplings, conformational database potentials | 435 NOE distance constraints, 244 dihedral angle restraints, 66 hydrogen bond restraints, 77 residual dipolar couplings | XwinNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | processing | XwinNMR | 3.5 | Bruker |
2 | processing | VNMR | 1.1 | Varian |
3 | processing | NMRPipe | 97.027.12.56 | Bax |
4 | data analysis | Sparky | 3.105 | Goddard and Kneller |
5 | structure solution | CNS | 1.1 | Brunger |
6 | structure solution | XPLOR-NIH | 2.9.7 | Clore, Kuszewski, Schwieters, Tjandra |
7 | refinement | XPLOR-NIH | 2.9.7 |