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NMR-DERIVED SOLUTION STRUCTURE OF A FIVE-ADENINE BULGE LOOP WITHIN A DNA DUPLEX
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 2.8MM IN DUPLEX; 10MM PHOSPHATE BUFFER, 100MM NACL, 0.05MM EDTA, 100% D2O 100mM NACL 7.0 AMBIENT 300 2 DQF-COSY 2.8MM IN DUPLEX; 10MM PHOSPHATE BUFFER, 100MM NACL, 0.05MM EDTA, 100% D2O 100mM NACL 7.0 AMBIENT 300 3 E-COSY 2.8MM IN DUPLEX; 10MM PHOSPHATE BUFFER, 100MM NACL, 0.05MM EDTA, 100% D2O 100mM NACL 7.0 AMBIENT 300 4 P-COSY 2.8MM IN DUPLEX; 10MM PHOSPHATE BUFFER, 100MM NACL, 0.05MM EDTA, 100% D2O 100mM NACL 7.0 AMBIENT 300 5 2D NOESY 2.8MM IN DUPLEX; 10MM PHOSPHATE BUFFER, 100MM NACL, 0.05MM EDTA, 90% H2O,10% D2O 100mM NACL 7.0 AMBIENT 278
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Varian UNITYPLUS 600 2 Varian UNITY 500
NMR Refinement Method Details Software TORSION ANGLE DYNAMICS AND RESTRAINED ENERGY MINIMIZATION VNMR
NMR Ensemble Information Conformer Selection Criteria target function Conformers Calculated Total Number 600 Conformers Submitted Total Number 15 Representative Model 6 (fewest violations)
Additional NMR Experimental Information Details THIS STRUCTURE WAS DETERMINED USING STANDARD 2D HOMONUCLEAR TECHNIQUES.
Computation: NMR Software # Classification Version Software Name Author 1 collection VNMR 4.3 VARIAN 2 processing NMRPipe 1.7 DELAGLIO 3 iterative matrix relaxation MARDIGRAS 3.2 BORGIAS & JAMES 4 structure solution DYANA 1.5 GUNTERT 5 structure solution Amber 5.0 pearlman 6 refinement Amber 5.0 pearlman