2AKG

Thallium form of the G-Quadruplex from Oxytricha Nova, d(G4T4G4)2

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D NOESY	0.005 M DNA, 0.0001 M EDTA-d12, 0.050 M Thallium-Nitrate, pH 6.0	100% D2O		6.5	1 atm	298
2	DQF-COSY	0.005 M DNA, 0.0001 M EDTA-d12, 0.050 M Thallium-Nitrate, pH 6.0	100% D2O		6.5	1 atm	298
3	31P-1H COSY	0.005 M DNA, 0.0001 M EDTA-d12, 0.050 M Thallium-Nitrate, pH 6.0	100% D2O		6.5	1 atm	298
4	2D NOESY	0.005 M DNA, 0.0001 M EDTA-d12, 0.050 M Thallium-Nitrate, pH 6.0	90% H2O/10% D2O		6.5	1 atm	278

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

NMR Refinement
Method	Details	Software
(1) distance geometry with simulated annealing; (2) torsion angle dynamics (2000 K for 60 ps with 15 fs timesteps); (3) cartesian dynamics (1000 K for 5 ps with 5 fs timesteps); (4) restrained molecular dynamics (100 cycles of 200 steps each)		VNMR

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	100
Conformers Submitted Total Number	10
Representative Model	1 (closest to the average)

Additional NMR Experimental Information
Details	This structure was determined without the use of isotopically enriched nucleotides.

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	VNMR	6.1b	Varian, Inc
2	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer, Bax
3	data analysis	Sparky	3.110	Goddard and Kneller
4	iterative matrix relaxation	CNS	1.1	Brunger, Adams, Clore, Delano, Gros, Grosse-Kunstleve, Jiang, Kuszewski, Nilges, Pannu, Read, Rice, Simonson, Warren
5	refinement	CNS	1.1	Brunger, Adams, Clore, Delano, Gros, Grosse-Kunstleve, Jiang, Kuszewski, Nilges, Pannu, Read, Rice, Simonson, Warren
6	structure solution	CNS	1.1	Brunger, Adams, Clore, Delano, Gros, Grosse-Kunstleve, Jiang, Kuszewski, Nilges, Pannu, Read, Rice, Simonson, Warren

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 R01GM157729.