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Structure of Nrd1 CID bound to phosphorylated RNAP II CTD
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-15N HSQC 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 2 2D 1H-13C HSQC 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 3 3D CBCA(CO)NH 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 4 3D HNCA 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 5 3D HNCACB 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 6 3D HN(CO)CA 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 7 3D HCCH-TOCSY 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 8 3D 1H-15N NOESY 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 9 3D 1H-13C NOESY aliphatic 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 10 3D filtered-edited NOESY 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293 11 2D filtered-filtered NOESY 2 mM [U-100% 13C; U-100% 15N] Nrd1 polypeptide, 2.3 mM phosphopeptide 90% H2O/10% D2O 100 8 ambient 293
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 600 2 Bruker AVANCE 900
NMR Refinement Method Details Software torsion angle dynamics, simulated annealing TopSpin
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 40 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 processing TopSpin Bruker Biospin 2 chemical shift assignment Sparky Goddard 3 structure solution CYANA Guntert, Mumenthaler and Wuthrich 4 refinement Amber Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm 5 geometry optimization CING Vuister, Doreleijers, da Silva 6 refinement CYANA Guntert, Mumenthaler and Wuthrich