2KX5
Recognition of HIV TAR RNA by peptide mimetic of Tat protein
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H TOCSY | 1 mM HIV-1 TAR/KP-Z-41-1 | 100% D2O | 0.01 | 6.6 | ambient | 298 | |
2 | 2D 1H-1H COSY | 1 mM [U-98% 13C; U-98% 15N] HIV-1 TAR/KP-Z-41-3 | 100% D2O | 0.01 | 6.6 | ambient | 298 | |
3 | 2D 1H-1H NOESY | 1 mM HIV-1 TAR/KP-Z-41-1 | 100% D2O | 0.01 | 6.6 | ambient | 298 | |
4 | 3D HCCH-TOCSY | 1 mM [U-98% 13C; U-98% 15N] HIV-1 TAR/KP-Z-41-3 | 100% D2O | 0.01 | 6.6 | ambient | 298 | |
5 | 3D 1H-13C NOESY | 1 mM [U-98% 13C; U-98% 15N] HIV-1 TAR/KP-Z-41-3 | 100% D2O | 0.01 | 6.6 | ambient | 298 | |
6 | 2D 1H-1H NOESY | 1 mM HIV-1 TAR/KP-Z-41-2 | 90% H2O/10% D2O | 0.01 | 6.6 | ambient | 277 | |
7 | 2D 1H-1H NOESY | 1 mM [U-2H] HIV-1 TAR/KP-Z-41-4 | 100% D2O | 0.01 | 6.6 | ambient | 298 | |
8 | 2D F1fF2f NOESY | 1 mM [U-98% 13C; U-98% 15N] HIV-1 TAR/KP-Z-41-3 | 100% D2O | 0.01 | 6.6 | ambient | 298 | |
9 | 2D F1fF2f NOESY | 1 mM [U-98% 13C; U-98% 15N] HIV-1 TAR/KP-Z-41-5 | 90% H2O/10% D2O | 0.01 | 6.6 | ambient | 277 | |
10 | 2D F1fF2f TOCSY | 1 mM [U-98% 13C; U-98% 15N] HIV-1 TAR/KP-Z-41-3 | 100% D2O | 0.01 | 6.6 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DRX | 500 |
2 | Bruker | DMX | 600 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | X-PLOR_NIH |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations and lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | X-PLOR_NIH | Schwieters, Kuszewski, Tjandra and Clore | |
2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
3 | chemical shift assignment | SPARKY | Goddard | |
4 | peak picking | SPARKY | Goddard | |
5 | refinement | X-PLOR_NIH | Schwieters, Kuszewski, Tjandra and Clore |