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Structural Characterization of Interactions between the Double-Stranded RNA-Binding Zinc Finger Protein JAZ and dsRNA
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 2 3D 1H-15N NOESY 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 3 3D HNCA 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 4 3D HNCO 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 5 3D HNCACB 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 6 3D 1H-15N TOCSY 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 7 3D 1H-13C NOESY 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 8 3D HCCH-COSY 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298 9 3D HCCH-TOCSY 200-300 mM [U-95% 13C; U-95% 15N] protein 90% H2O/10% D2O 55 7.4 ambient 298
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DMX 750 2 Bruker DRX 600 3 Bruker AVANCE 800
NMR Refinement Method Details Software simulated annealing HADDOCK MODEL OF JAZ ZINC FINGER 3 COMPLEXED WITH DSRNA. Amber
NMR Ensemble Information Conformer Selection Criteria Conformers Calculated Total Number 100 Conformers Submitted Total Number 1 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 refinement Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman 2 structure solution CYANA Guntert, Mumenthaler and Wuthrich 3 chemical shift assignment NMRView Johnson, One Moon Scientific 4 geometry optimization TALOS Cornilescu, Delaglio and Bax 5 refinement HADDOCK Alexandre Bonvin