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Solution NMR structure of the cyclic plant protein PDP-23 in DPC micelles
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 1D 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 298 Bruker AVANCE III 700 2 2D 1H-1H TOCSY 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 298 Bruker AVANCE III 700 3 2D 1H-1H NOESY 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 298 Bruker AVANCE III 700 4 2D 1H-13C HSQC 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 298 Bruker AVANCE III 700 5 2D 1H-1H TOCSY 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 288 Bruker AVANCE III 700 6 2D 1H-1H TOCSY 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 293 Bruker AVANCE III 700 8 2D 1H-1H TOCSY 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 303 Bruker AVANCE III 700 7 2D 1H-1H TOCSY 2 mg/mL PDP-23, 12 mM DPC 90% H2O/10% D2O 0 mM 5 ambient 308 Bruker AVANCE III 700
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE III 700
NMR Refinement Method Details Software simulated annealing Simulated annealing using torsion angle dynamics CYANA simulated annealing Refinement in explicit water using Cartesian space CNS
NMR Ensemble Information Conformer Selection Criteria structures with acceptable covalent geometry, structures with lowest energy Conformers Calculated Total Number 50 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 data analysis TopSpin Bruker Biospin 2 processing TopSpin Bruker Biospin 3 chemical shift assignment CARA Keller and Wuthrich 4 peak picking CARA Keller and Wuthrich 5 structure calculation CYANA Guntert, Mumenthaler and Wuthrich 6 structure calculation CNS Brunger, Adams, Clore, Gros, Nilges and Read 7 refinement CNS Brunger, Adams, Clore, Gros, Nilges and Read