SOLUTION NMR

NMR Experiment
Experiment Type Sample Contents Ionic Strength Solvent pH Pressure Temprature (K)
1 2D 1H-1H NOESY 28.8 mg Thymosin-Alpha1, 40 % TFE, 10% D2O, 50% H2O 0 10% D2O, 50% H2O 4.9 ambient 298
2 2D 1H-1H TOCSY 28.8 mg Thymosin-Alpha1, 40 % TFE, 10% D2O, 50% H2O 0 10% D2O, 50% H2O 4.9 ambient 298
NMR Spectrometer Information
Spectrometer Manufacturer Model Field Strength
1 Varian UNITYPLUS 800
NMR Refinement
Method Details Software
molecular dynamics, restrained molecular dynamics, restrained molecular dynamics and selection, average structure 25 ns at 300K on a explicit solvent ratio 40% TFE/H2O (v/v), with a linear-helix initial structure, After the 25 ns on explicit solvent, 1 ns GB simulation follows with all (549)restrains at 300K., After the 1ns GB restrained simulation, a 10ns restrained MD simulation follows on a explicit solvent ratio 40% TFE/water (v/v). 1000 structures were collected (1 every 10ps), minimized and sorted by total energy. The best 20 structures with the lowest energy were selected., The average structure was obtained from the average of the 20 best structures with the lowest energy and minimized with the 549 restraints and the GB method in order to taking in account the salvation implicitly. 1
NMR Ensemble Information
Conformer Selection Criteria 1 average structure + 20 structures with the lowest energy
Conformers Calculated Total Number 1000
Conformers Submitted Total Number 21
Representative Model 1 (average structure)
Computation: NMR Software
# Classification Version Software Name Author
1 molecular dynamics 9.0 Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm
2 minimization 9.0 Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm
3 data analysis 9.0 Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm
4 refinement ? Amber ?
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