2L84
Solution NMR structures of CBP bromodomain with small molecule j28
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D HNCACB | 0.5 mM [U-100% 13C; U-100% 15N] protein, 3 mM J28, 100 mM sodium phosphate, 3 mM [U-100% 2H] DTT | 90% H2O/10% D2O | 6.5 | ambient | 298 | ||
2 | 3D HN(COCA)CB | 0.5 mM [U-100% 13C; U-100% 15N] protein, 3 mM J28, 100 mM sodium phosphate, 3 mM [U-100% 2H] DTT | 90% H2O/10% D2O | 6.5 | ambient | 298 | ||
3 | 3D 1H-15N NOESY | 0.5 mM [U-100% 13C; U-100% 15N] protein, 3 mM J28, 100 mM sodium phosphate, 3 mM [U-100% 2H] DTT | 90% H2O/10% D2O | 6.5 | ambient | 298 | ||
4 | 3D 1H-13C NOESY aliphatic | 0.5 mM [U-100% 13C; U-100% 15N] protein, 3 mM J28, 100 mM sodium phosphate, 3 mM [U-100% 2H] DTT | 100% D2O | 6.5 | ambient | 298 | ||
5 | 3D 1H-13C NOESY aromatic | 0.5 mM [U-100% 13C; U-100% 15N] protein, 3 mM J28, 100 mM sodium phosphate, 3 mM [U-100% 2H] DTT | 100% D2O | 6.5 | ambient | 298 | ||
6 | 3D 13C-edited 13C/15N-filtered NOESY | 0.5 mM [U-100% 13C; U-100% 15N] protein, 3 mM J28, 100 mM sodium phosphate, 3 mM [U-100% 2H] DTT | 100% D2O | 6.5 | ambient | 298 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 900 |
2 | Bruker | AVANCE | 800 |
3 | Bruker | AVANCE | 600 |
4 | Bruker | DRX | 500 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing, torsion angle dynamics | ARIA |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | ARIA | 2.2 | Linge, O'Donoghue and Nilges |
2 | chemical shift calculation | NMRPipe | 2.3 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
3 | processing | NMRPipe | 2.3 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
4 | peak picking | NMRView | 5.04 | Johnson, One Moon Scientific |
5 | data analysis | NMRView | 5.04 | Johnson, One Moon Scientific |
6 | structure solution | CNS | 1.2 | Brunger, Adams, Clore, Gros, Nilges and Read |