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NMR-based docking model of GrxS14-BolA2 apo-heterodimer from Arabidopsis thaliana
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 0.12 mM [U-100% 15N] BolA2, 0.012-0.24 mM GrxS14 90% H2O/10% D2O 0.05 7 ambient 298 2 2D 1H-15N HSQC 0.12 mM [U-100% 15N] GrxS14, 0.012-0.24 mM BolA2 90% H2O/10% D2O 0.05 7 ambient 298 3 2D 1H-15N HSQC 0.12 mM [U-100% 15N] GrxS14 90% H2O/10% D2O 0.05 7 ambient 298 4 2D 1H-15N HSQC 0.12 mM [U-100% 15N] BolA2 90% H2O/10% D2O 0.05 7 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DRX 600
NMR Refinement Method Details Software molecular dynamics, energy minimization Energy minimization using the YASARA force field. The structure was moved to a nearby (local) minimum, with removal of clashes and small errors. NMRView
NMR Ensemble Information Conformer Selection Criteria all calculated structures submitted Conformers Calculated Total Number 1 Conformers Submitted Total Number 1 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 peak picking NMRView Johnson, One Moon Scientific 2 chemical shift assignment NMRView Johnson, One Moon Scientific 3 structure solution GRAMM-X_Protein-Protein_Docking_Web_Server 1.2.0 Tovchigrechko 4 geometry optimization YASARA_Energy_Minimization_Server Krieger 5 refinement YASARA_Energy_Minimization_Server Krieger 6 refinement GRAMM-X_Protein-Protein_Docking_Web_Server Tovchigrechko