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DNA-archeal MC1 protein complex structure by NMR
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 1.18 mM [U-100% 15N] protein, 1.18 mM [U-100% 13C; U-100% 15N] A1-A15 DNA, 10 mM sodium phosphate, 100 mM sodium chloride, 1 mM EDTA 90% H2O/10% D2O 100 6 ambient 299 2 3D 1H-15N NOESY 1.18 mM [U-100% 15N] protein, 1.18 mM [U-100% 13C; U-100% 15N] A1-A15 DNA, 10 mM sodium phosphate, 100 mM sodium chloride, 1 mM EDTA 90% H2O/10% D2O 100 6 ambient 299 3 2D 1H-15N HSQC 0.85 mM [U-100% 15N] protein, 0.85 mM [U-100% 13C; U-100% 15N] A1-A15 DNA, 10 mM sodium phosphate, 100 mM sodium chloride, 1 mM EDTA, 10 mg/mL Pf1 phage 90% H2O/10% D2O 100 6 ambient 299 4 2D 1H-13C HSQC 0.85 mM [U-100% 15N] protein, 0.85 mM [U-100% 13C; U-100% 15N] A1-A15 DNA, 10 mM sodium phosphate, 100 mM sodium chloride, 1 mM EDTA, 10 mg/mL Pf1 phage 90% H2O/10% D2O 100 6 ambient 299
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian INOVA 600 2 Bruker AVANCE 700
NMR Ensemble Information Conformer Selection Criteria structures with the least restraint violations Conformers Calculated Total Number 200 Conformers Submitted Total Number 12 Representative Model 1 (fewest violations)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin Bruker Biospin 2 processing TopSpin Bruker Biospin 3 collection VNMR Varian 4 processing NMRPipe Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax 5 peak picking CcpNMR CCPN 6 data analysis CcpNMR CCPN 7 structure solution HADDOCK Alexandre Bonvin 8 refinement HADDOCK Alexandre Bonvin 9 refinement CNS Brunger, Adams, Clore, Gros, Nilges and Read