1M5L
Structure of wild-type and mutant internal loops from the SL-1 domain of the HIV-1 packaging signal
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 1.4 mM RNA, 10 mM sodium phosphate, 0.1 mM EDTA | D2O, H2O | 10 mM sodium phosphate | 6.5 | ambient | 300 | |
2 | 2D TOCSY | 1.4 mM RNA, 10 mM sodium phosphate, 0.1 mM EDTA | D2O, H2O | 10 mM sodium phosphate | 6.5 | ambient | 300 | |
3 | 2D DQF-COSY | 1.4 mM RNA, 10 mM sodium phosphate, 0.1 mM EDTA | D2O, H2O | 10 mM sodium phosphate | 6.5 | ambient | 300 | |
4 | 2D ROESY | 1.4 mM RNA, 10 mM sodium phosphate, 0.1 mM EDTA | D2O, H2O | 10 mM sodium phosphate | 6.5 | ambient | 300 | |
5 | 2D H-P HETCOR | 1.4 mM RNA, 10 mM sodium phosphate, 0.1 mM EDTA | D2O, H2O | 10 mM sodium phosphate | 6.5 | ambient | 300 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 600 |
2 | Bruker | DRX | 500 |
3 | Bruker | AVANCE | 800 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing | XwinNMR |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | 14 structures with the least restraint violations and the lowest energy; 1 ENERGY-MINIMIZED AVERAGE OF THE 14 CONVERGED STRUCTURES |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 15 |
Representative Model | 1 (minimized average structure) |
Additional NMR Experimental Information | |
---|---|
Details | ENERGY-MINIMIZED AVERAGE OF 14 CONVERGED STRUCTURES |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | XwinNMR | 2.6 | bruker |
2 | data analysis | Felix | 97 | Accelrys |
3 | structure solution | X-PLOR | 3.851 | Brunger, A.T. |
4 | refinement | X-PLOR | 3.851 | Brunger, A.T. |