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Solution Structure of the oligomerization domain in Dmp53
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 20mM sodium phosphate, 100mM sodium chloride, 0.03% sodium azide, 0.5-0.8mM [U-15N] protein 90% H2O/10% D2O 7 ambient 298 2 3D HNCA 20mM sodium phosphate, 100mM sodium chloride, 0.03% sodium azide, 0.5-0.8mM [U-13C; U-15N] protein 90% H2O/10% D2O 7 ambient 298 3 3D 1H-15N NOESY 20mM sodium phosphate, 100mM sodium chloride, 0.03% sodium azide, 0.5-0.8mM [U-15N] protein 90% H2O/10% D2O 7 ambient 298 4 3D 1H-13C NOESY 20mM sodium phosphate, 100mM sodium chloride, 0.03% sodium azide, 0.5-0.8mM [U-13C; U-15N] protein 90% H2O/10% D2O 7 ambient 298 5 2D 1H-1H NOESY 20mM sodium phosphate, 100mM sodium chloride, 0.5-0.8mM protein 100% D2O 7 ambient 298 6 4D J Resolved NOESY 20mM sodium phosphate, 100mM sodium chloride, 0.5mM [U-13C; U-15N] protein 100% D2O 7 ambient 298 7 2D 1H-1H TOCSY 20mM sodium phosphate, 100mM sodium chloride, 0.5-0.8mM protein 100% D2O 7 ambient 298 8 3D HN(CO)CA 20mM sodium phosphate, 100mM sodium chloride, 0.03% sodium azide, 0.5-0.8mM [U-13C; U-15N] protein 90% H2O/10% D2O 7 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 700 2 Bruker AVANCE 800 3 Bruker AVANCE 600
NMR Refinement Method Details Software simulated annealing 100 structures were calculated with Aria1.2, then 20 lowest energies structures underwent water refinement ARIA
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 chemical shift assignment ARIA 1.2 Linge, O'Donoghue, Nilges 2 refinement ARIA 1.2 Linge, O'Donoghue, Nilges 3 chemical shift assignment XEASY Bartels et al. 4 geometry optimization TALOS Cornilescu, Delaglio, Bax 5 collection XwinNMR Bruker Biospin 6 processing XwinNMR Bruker Biospin 7 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer, Bax