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Model for VP16 binding to PC4
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 15N-HSQCs 0.2 mM VP16ad U-15N or U15N,13C, 0-0.5 mM PC4 or PC4ctd, 50 or 400 mM KCl, 50 mM phosphate buffer pH 5.6, 2 M D6-Glycine H2O 100-450 mM 5.6 1 atm 298 2 13C-HNCACB 0.2 mM PC4 or PC4ctd U-15N, 0-0.5 mM VP16ad, 50 or 400 mM KCl, 50 mM phosphate buffer pH 5.6, 2 M D6-Glycine H2O 100-450 mM 5.6 1 atm 305 3 13C-HNCO 0.2 mM VP16ad U-15N or U15N,13C, 0-0.5 mM PC4 or PC4ctd, 50 or 400 mM KCl, 50 mM phosphate buffer pH 5.6, 2 M D6-Glycine H2O 100-450 mM 5.6 1 atm 298 4 15N-NOESY-HSQC 0.2 mM PC4 or PC4ctd U-15N, 0-0.5 mM VP16ad, 50 or 400 mM KCl, 50 mM phosphate buffer pH 5.6, 2 M D6-Glycine H2O 100-450 mM 5.6 1 atm 305
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker AVANCE 500 2 Bruker AVANCE 600 3 Bruker AVANCE 750 4 Varian INOVA 500 5 Varian INOVA 750
NMR Refinement Method Details Software The model was calculated using HADDOCK The structure represents a docking model. The starting structure for PC4 was taken from the PDB entry 1PCF. XwinNMR
NMR Ensemble Information Conformer Selection Criteria Top-ranked ensemble, according to the average interaction energy and buried surface area Conformers Calculated Total Number 200 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 collection XwinNMR 3.x Bruker Biospin 2 collection VNMR 1 Varian Inc. 3 processing NMRPipe 2.4 Delaglio et al. 4 data analysis Sparky 3.110 Goddard et al. 5 structure solution CNS 1.1 Brunger et al. 6 refinement HADDOCK 1.2 Dominguez et al.