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Solution structure of double-stranded RNA binding domain of S. cerevisiae RNase III (Rnt1p) in complex with AAGU tetraloop hairpin
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 90% H2O/10% D2O 0.15 6.5 ambient 298 2 2D 1H-1H TOCSY 0.8-1 mM protein, 1-2 mM [U-100% 13C; U-100% 15N] DNA/RNA hybrid 100% D2O 0.15 6.5 ambient 298 3 2D 1H-1H NOESY 0.8-1 mM protein, 1-2 mM [U-100% 13C; U-100% 15N] DNA/RNA hybrid 90% H2O/10% D2O 0.15 6.5 ambient 298 4 3D CBCA(CO)NH 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 90% H2O/10% D2O 0.15 6.5 ambient 298 5 3D HNCACB 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 90% H2O/10% D2O 0.15 6.5 ambient 298 6 3D HCCH-TOCSY 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 100% D2O 0.15 6.5 ambient 298 7 3D HCCH-COSY 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 100% D2O 0.15 6.5 ambient 298 8 3D 1H-15N NOESY 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 90% H2O/10% D2O 0.15 6.5 ambient 298 9 3D 1H-13C NOESY 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 100% D2O 0.15 6.5 ambient 298 10 2D 1H-1H COSY 0.8-1 mM protein, 1-2 mM [U-100% 13C; U-100% 15N] DNA/RNA hybrid 100% D2O 0.15 6.5 ambient 298 11 2D FILTERED/EDITED NOESY 0.8-1 mM protein, 1-2 mM [U-100% 13C; U-100% 15N] DNA/RNA hybrid 100% D2O 0.15 6.5 ambient 298 12 2D 1H-15N HSQC IPAP 0.8-1 mM [U-100% 13C; U-100% 15N] protein, 1-2 mM DNA/RNA hybrid 90% H2O/10% D2O 0.15 6.5 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DRX 600 2 Bruker DRX 500
NMR Refinement Method Details Software torsion angle dynamics X-PLOR NIH
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 16 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 structure solution X-PLOR NIH 2.24 Schwieters, Kuszewski, Tjandra and Clore 2 refinement X-PLOR NIH 2.24 Schwieters, Kuszewski, Tjandra and Clore 3 chemical shift assignment NMRView 5.2.2 Johnson, One Moon Scientific 4 data analysis NMRView 5.2.2 Johnson, One Moon Scientific 5 peak picking NMRView 5.2.2 Johnson, One Moon Scientific 6 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 7 data analysis TALOS Cornilescu, Delaglio and Bax 8 collection TopSpin 2.0 Bruker Biospin 9 collection XwinNMR Bruker Biospin 10 data analysis ProcheckNMR Laskowski and MacArthur