2L7D

Ribonucleotide Perturbation of DNA Structure: Solution Structure of [d(CGC)r(G)d(AATTCGCG)]2

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	2.0 mM rG4 substituted Drew Dickerson dodecamer, 50.0 mM sodium chloride, 50.0 mM sodium phosphate, 0.5 mM EDTA	100% D2O	100	7.0	ambient	298
2	2D 1H-1H TOCSY	2.0 mM rG4 substituted Drew Dickerson dodecamer, 50.0 mM sodium chloride, 50.0 mM sodium phosphate, 0.5 mM EDTA	100% D2O	100	7.0	ambient	298
3	2D 1H-1H COSY	2.0 mM rG4 substituted Drew Dickerson dodecamer, 50.0 mM sodium chloride, 50.0 mM sodium phosphate, 0.5 mM EDTA	100% D2O	100	7.0	ambient	298
4	2D 1H-1H COSY	2.0 mM rG4 substituted Drew Dickerson dodecamer, 50.0 mM sodium chloride, 50.0 mM sodium phosphate, 0.5 mM EDTA	100% D2O	100	7.0	ambient	298
5	2D 1H-1H NOESY	2.0 mM rG4 substituted Drew Dickerson dodecamer, 50.0 mM sodium chloride, 50.0 mM sodium phosphate, 0.5 mM EDTA	90% H2O/10% D2O	100	7.0	ambient	298
6	2D 1H-31P COSY	2.0 mM rG4 substituted Drew Dickerson dodecamer, 50.0 mM sodium chloride, 50.0 mM sodium phosphate, 0.5 mM EDTA	100% D2O	100	7.0	ambient	298
7	2D 1H-31P J-COSY	2.0 mM rG4 substituted Drew Dickerson dodecamer, 50.0 mM sodium chloride, 50.0 mM sodium phosphate, 0.5 mM EDTA	100% D2O	100	7.0	ambient	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	600
2	Varian	INOVA	500

NMR Refinement
Method	Details	Software
simulated annealing, torsion angle dynamics		VnmrJ

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	100
Conformers Submitted Total Number	5
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	VnmrJ	2.1B	Varian
2	processing	NMRPipe	2010.190.16.149	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3	chemical shift assignment	NMRView	8.0.b64	Johnson, One Moon Scientific
4	data analysis	NMRView	8.0.b64	Johnson, One Moon Scientific
5	peak picking	NMRView	8.0.b64	Johnson, One Moon Scientific
6	structure solution	XPLOR-NIH	2.25	Schwieters, Kuszewski, Tjandra and Clore
7	refinement	XPLOR-NIH	2.25	Schwieters, Kuszewski, Tjandra and Clore

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.