1JUR
Solution Structure of Helix III in Xenopus Oocyte 5S rRNA.
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 2mM Helix III hairpin; 5mM Cacodylate buffer (pH 6.5); 100 mM KCl | 90% H2O/10% D2O | 100 mM KCl | 6.5 | ambient | 10 | |
2 | 2D NOESY | 2mM Helix III hairpin; 5mM Cacodylate buffer (pH 6.5); 100 mM KCl | 100% D2O | 100 mM KCl | 6.5 | ambient | 30 | |
3 | DQF-COSY | 2mM Helix III hairpin; 5mM Cacodylate buffer (pH 6.5); 100 mM KCl | 100% D2O | 100 mM KCl | 6.5 | ambient | 30 | |
4 | 2D_13C_separated_HMQC | 2mM Helix III hairpin; 5mM Cacodylate buffer (pH 6.5); 100 mM KCl | 100% D2O | 100 mM KCl | 6.5 | ambient | 30 | |
5 | 2D_31P_separated_COSY | 2mM Helix III hairpin; 5mM Cacodylate buffer (pH 6.5); 100 mM KCl | 100% D2O | 100 mM KCl | 6.5 | ambient | 30 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | UNITY | 500 |
2 | Varian | UNITYPLUS | 600 |
3 | Varian | INOVA | 800 |
4 | GE | OMEGA | 500 |
NMR Refinement | ||
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Method | Details | Software |
torsion angle dynamics | In addition to the experimentally derived distance constraints and dihedral angle constraints, the structures were computed using 22 non-experimental constraints to ensure Watson-Crick Base pairing and tetraloop formation. | VNMR |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with acceptable covalent geometry,structures with favorable non-bond energy,structures with the lowest energy |
Conformers Calculated Total Number | 30 |
Conformers Submitted Total Number | 9 |
Representative Model | 1 (closest to the average) |
Additional NMR Experimental Information | |
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Details | This structure was determined using standard 2D homonuclear techniques. |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | VNMR | Varian | |
2 | processing | Felix | 95 | Biosym |
3 | structure solution | X-PLOR | 3.851 | Brunger |
4 | refinement | X-PLOR | 3.851 | Brunger |