5B81

Solution NMR structure of a 16-mer DNA duplex containing quadruple GC mismatches showing staggered base pairing, and consequent rescue of canonical double helical characteristics

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	350 uM Unlabelled Mismatched DNA	95% H2O/5% D2O	50, sodium, chloride mM	7.2	1 atm	288	Bruker AVANCE III 500
2	2D 1H-1H NOESY	350 uM Unlabelled Mismatched DNA	95% H2O/5% D2O	50, sodium, chloride mM	7.2	1 atm	288	Bruker AVANCE III 700
3	2D 1H-1H TOCSY	350 uM Unlabelled Mismatched DNA	95% H2O/5% D2O	50, sodium, chloride mM	7.2	1 atm	288	Bruker AVANCE III 500
4	2D DQF-COSY	350 uM Unlabelled Mismatched DNA	95% H2O/5% D2O	50, sodium, chloride mM	7.2	1 atm	288	Bruker AVANCE III 700

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III	500
2	Bruker	AVANCE III	700

NMR Refinement
Method	Details	Software
simulated annealing		Amber

NMR Ensemble Information
Conformer Selection Criteria	all calculated structures submitted
Conformers Calculated Total Number	20
Conformers Submitted Total Number	20
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	Amber	14	Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
2	structure calculation	Amber	14	Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
3	chemical shift assignment	Sparky	3.114	Goddard
4	peak picking	Sparky	3.114	Goddard

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.