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solution structures of BRD4 second bromodomain with NF-kB-K310ac peptide
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 3D HNCACB 100 mM sodium phosphate, 5 mM [U-100% 2H] DTT 90% H2O/10% D2O 6.5 ambient 298 2 3D HN(COCA)CB 100 mM sodium phosphate, 5 mM [U-100% 2H] DTT 90% H2O/10% D2O 6.5 ambient 298 3 3D 1H-15N NOESY 100 mM sodium phosphate, 5 mM [U-100% 2H] DTT 90% H2O/10% D2O 6.5 ambient 298 4 3D 1H-13C NOESY aliphatic 100 mM sodium phosphate, 5 mM [U-100% 2H] DTT 100% D2O 6.5 ambient 298 5 3D 1H-13C NOESY aromatic 100 mM sodium phosphate, 5 mM [U-100% 2H] DTT 100% D2O 6.5 ambient 298 6 3D 13C-Edited-15N/13C filtered NOESY 100 mM sodium phosphate, 5 mM [U-100% 2H] DTT 100% D2O 6.5 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 800 2 Bruker AVANCE 900 3 Bruker AVANCE 600 4 Bruker DRX 500
NMR Refinement Method Details Software DGSA-distance geometry simulated annealing, torsion angle dynamics ARIA
NMR Ensemble Information 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 # Classification Version Software Name Author 1 refinement ARIA 2.3 Linge, O'Donoghue and Nilges 2 processing NMRPipe 7.1 Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 3 chemical shift calculation NMRPipe 7.1 Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 4 geometry optimization TALOS 3.70F1 Cornilescu, Delaglio and Bax 5 chemical shift assignment NMRView 5.04 Johnson, One Moon Scientific 6 data analysis NMRView 5.04 Johnson, One Moon Scientific 7 peak picking NMRView 5.04 Johnson, One Moon Scientific 8 structure solution CNS 1.21 Brunger, Adams, Clore, Gros, Nilges and Read 9 refinement CNS Brunger, Adams, Clore, Gros, Nilges and Read