8U3M
The FARFAR-MD-NMR ensemble of an HIV-1 TAR excited state
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-13C HSQC aromatic | 1 mM [U-100% 13C; U-100% 15N] UUCGES2_TAR | 90% H2O/10% D2O | 25 mM | 6.4 | 1 atm | 298 | Bruker AVANCE 600 |
2 | 2D 1H-13C HSQC aromatic | 1 mM [U-100% 13C; U-100% 15N] UUCGES2_TAR | 90% H2O/10% D2O | 25 mM | 6.4 | 1 atm | 298 | Bruker AVANCE 600 |
3 | 2D 1H-13C HSQC sugar | 1 mM [U-100% 13C; U-100% 15N] UUCGES2_TAR | 90% H2O/10% D2O | 25 mM | 6.4 | 1 atm | 298 | Bruker AVANCE 600 |
4 | 2D 1H-13C HSQC sugar | 1 mM [U-100% 13C; U-100% 15N] UUCGES2_TAR | 90% H2O/10% D2O | 25 mM | 6.4 | 1 atm | 298 | Bruker AVANCE 600 |
5 | 2D 1H-15N HSQC | 1 mM [U-100% 13C; U-100% 15N] UUCGES2_TAR | 90% H2O/10% D2O | 25 mM | 6.4 | 1 atm | 298 | Bruker AVANCE 600 |
6 | 2D 1H-15N HSQC | 1 mM [U-100% 13C; U-100% 15N] UUCGES2_TAR | 90% H2O/10% D2O | 25 mM | 6.4 | 1 atm | 298 | Bruker AVANCE 600 |
7 | 2D 1H-1H NOESY | 1 mM [U-100% 13C; U-100% 15N] UUCGES2_TAR | 90% H2O/10% D2O | 25 mM | 6.4 | 1 atm | 298 | Bruker AVANCE 600 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | FARFAR-MD-NMR | Amber |
NMR Ensemble Information | |
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Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 10 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (target function) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
2 | structure calculation | Rosetta | Honglue Shi | |
3 | refinement | Amber | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman |