7QA2 | pdb_00007qa2

Solution structure of an intramolecular RNA G-quadruplex formed by the 6A mutant from a 22mer guanine-rich sequence within the 5'UTR of BCL-2 proto-oncogene

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	0.6 mM BCL-2 6A	90% H2O/10% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700
2	2D 1H-1H NOESY	0.6 mM BCL-2 6A	100% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700
3	2D 1H-1H TOCSY	0.6 mM BCL-2 6A	100% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700
4	2D 1H-13C HSQC	0.6 mM BCL-2 6A	100% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700
5	JR-HMBC	0.6 mM BCL-2 6A	90% H2O/10% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 600
6	H8N2 HNN-COSY	0.15 mM [U-13C; U-15N]-Gua BCL-2 6A	90% H2O/10% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700
7	H1N2 HNN-COSY	0.15 mM [U-13C; U-15N]-Gua BCL-2 6A	90% H2O/10% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700
8	constant-time HSQC	0.4 mM [U-13C; U-15N]-Ade BCL-2 6A	100% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 600
9	constant-time HSQC	0.15 mM [U-13C; U-15N]-Gua BCL-2 6A	100% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700
10	constant-time HSQC	0.4 mM [U-13C; U-15N]-Ura BCL-2 6A	100% D2O	2 mM	7.0	1 atm	298	Bruker AVANCE 700

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	600
2	Bruker	AVANCE	700

NMR Refinement
Method	Details	Software
simulated annealing		X-PLOR NIH

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	200
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Additional NMR Experimental Information
Details	In this structure the 5' triphosphate moiety is not included, due to the lack of structural information that can be gathered by NMR, leaving a 5'-hydroxyl end.

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin	4.0.6	Bruker Biospin
2	chemical shift assignment	NMRFAM-SPARKY	1.414	Lee W, Tonelli M, Markley JL
3	peak picking	NMRFAM-SPARKY	1.414	Lee W, Tonelli M, Markley JL
4	structure calculation	X-PLOR NIH	3.0	Schwieters, Kuszewski, Tjandra and Clore
5	refinement	X-PLOR NIH	3.0	Schwieters, Kuszewski, Tjandra and Clore

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.