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Solution Structure of BCL-xL in its p53-bound conformation determined with selective isotope labelling of I,L,V sidechains
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 0.6 mM [U- 98% 13C; U- 98% 15N; U- 98% 2H; U- I,LV CH3 1H] BCL-xL, 0.65 mM p53 93% H2O/7% D2O 0.05 7.0 ambient 298 2 2D 1H-13C HSQC aliphatic 0.6 mM [U- 98% 13C; U- 98% 15N; U- 98% 2H; U- I,LV CH3 1H] BCL-xL, 0.65 mM p53 93% H2O/7% D2O 0.05 7.0 ambient 298 3 3D HNCACB 0.6 mM [U- 98% 13C; U- 98% 15N; U- 98% 2H; U- I,LV CH3 1H] BCL-xL, 0.65 mM p53 93% H2O/7% D2O 0.05 7.0 ambient 298 4 3D HNCO 0.6 mM [U- 98% 13C; U- 98% 15N; U- 98% 2H; U- I,LV CH3 1H] BCL-xL, 0.65 mM p53 93% H2O/7% D2O 0.05 7.0 ambient 298 5 3D 1H-15N NOESY 0.6 mM [U- 98% 13C; U- 98% 15N; U- 98% 2H; U- I,LV CH3 1H] BCL-xL, 0.65 mM p53 93% H2O/7% D2O 0.05 7.0 ambient 298 6 3D 1H-13C NOESY aliphatic 0.6 mM [U- 98% 13C; U- 98% 15N; U- 98% 2H; U- I,LV CH3 1H] BCL-xL, 0.65 mM p53 93% H2O/7% D2O 0.05 7.0 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 800 2 Bruker AVANCE 600
NMR Refinement Method Details Software molecular dynamics ENERGY MINIMIZATION WITH 100 STEPS STEEPEST GRADIENT DESCENT FOLLOWED BY 100 CONJUGATE GRADIENT DESCENT STEPS TopSpin
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin 2.1 Bruker Biospin 2 processing TopSpin 2.1 Bruker Biospin 3 data analysis CARA Keller, R.L.J. 4 chemical shift assignment CARA Keller, R.L.J. 5 structure solution CYANA Guntert, Mumenthaler and Wuthrich 6 refinement Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman