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Solution Structure of ydhR protein from Escherichia coli
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 3D_15N-separated_NOESY 0.5 mM U-15N,13C; 25 mM MES, 450 mM NaCl, 0.01% Sodium Azide 90% H2O/10% D2O 450 mM NaCl 6.5 Ambient 303 2 3D_13C-aliphatic_region-separated NOESY 0.5 mM U-15N,13C; 25 mM MES, 450 mM NaCl, 0.01% Sodium Azide 100% D2O 450 mM NaCl 6.5 Ambient 303 3 3D_13C-aromatic_region-separated NOESY 0.5 mM U-15N,13C; 25 mM MES, 450 mM NaCl, 0.01% Sodium Azide 100% D2O 450 mM NaCl 6.5 Ambient 303
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 600
NMR Refinement Method Details Software simulated annealing,torsion angle dynamics, molecular dynamics,
refinement in presence of solvent 3461 NOE distance constraints
200 dihedral angle constraints VNMR
NMR Ensemble Information Conformer Selection Criteria target function Conformers Calculated Total Number 100 Conformers Submitted Total Number 20 Representative Model 1 (lowest energy)
Additional NMR Experimental Information Details The structure was determined using triple-resonance NMR spectroscopy.
Computation: NMR Software # Classification Version Software Name Author 1 collection VNMR 6.1B Varian Inc. 2 processing NMRPipe 2.3 Frank Delaglio Stephan Grzesiek, Guang Zhu, Geerten W. Vuister, John Pfeifer, and Ad Bax 3 data analysis NMRView 5.2.2 Bruce Johnson 4 refinement CYANA 2.032.3 untert, P., Mumenthaler, C. and Wuthrich, K. 5 structure solution CNS 1.1 A.T.Brunger, P.D.Adams, G.M.Clore, W.L.Delano, P.Gros, R.W.Grosse-Kunstleve, J.-S.Jiang, J.Kuszewski, M.Nilges, N.S.Pannu, R.J.Read, L.M.Rice, T.Simonson, G.L.Warren