7RQ5 | pdb_00007rq5

Hairpin near 3'-Splice Site of Influenza A Segment 7 Bound to 5-nt Oligonucleotide

SOLUTION NMR

---

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	0.5 mM RNA (5'-R(*AP*UP*CP*CP*AP*GP*AP*AP*AP*CP*GP*GP*AP*UP*GP*GP*AP*UP*A)-3'), 0.49 mM RNA (5'-D(*(MU5)P*(MLC)P*(MRC))-R(P*(LG)P*(MU3))-3'), 10 mM potassium phosphate, 0.05 mM sodium EDTA	100% D2O	11 mM	6.2	ambient	293	Varian UNITY 600
2	2D 1H-1H TOCSY	0.5 mM RNA (5'-R(*AP*UP*CP*CP*AP*GP*AP*AP*AP*CP*GP*GP*AP*UP*GP*GP*AP*UP*A)-3'), 0.49 mM RNA (5'-D(*(MU5)P*(MLC)P*(MRC))-R(P*(LG)P*(MU3))-3'), 10 mM potassium phosphate, 0.05 mM sodium EDTA	100% D2O	11 mM	6.2	ambient	293	Varian UNITY 600
3	2D 1H-31P COSY	0.5 mM RNA (5'-R(*AP*UP*CP*CP*AP*GP*AP*AP*AP*CP*GP*GP*AP*UP*GP*GP*AP*UP*A)-3'), 0.49 mM RNA (5'-D(*(MU5)P*(MLC)P*(MRC))-R(P*(LG)P*(MU3))-3'), 10 mM potassium phosphate, 0.05 mM sodium EDTA	100% D2O	11 mM	6.2	ambient	293	Varian UNITY 600
4	2D 1H-13C HSQC	0.5 mM RNA (5'-R(*AP*UP*CP*CP*AP*GP*AP*AP*AP*CP*GP*GP*AP*UP*GP*GP*AP*UP*A)-3'), 0.49 mM RNA (5'-D(*(MU5)P*(MLC)P*(MRC))-R(P*(LG)P*(MU3))-3'), 10 mM potassium phosphate, 0.05 mM sodium EDTA	100% D2O	11 mM	6.2	ambient	293	Varian UNITY 600
5	2D 1H-1H NOESY	0.5 mM RNA (5'-R(*AP*UP*CP*CP*AP*GP*AP*AP*AP*CP*GP*GP*AP*UP*GP*GP*AP*UP*A)-3'), 0.49 mM RNA (5'-D(*(MU5)P*(MLC)P*(MRC))-R(P*(LG)P*(MU3))-3'), 10 mM potassium phosphate, 0.05 mM sodium EDTA	95% H2O/5% D2O	11 mM	6.2	ambient	274	Varian UNITY 600
6	2D 1H-1H TOCSY	0.5 mM RNA (5'-R(*AP*UP*CP*CP*AP*GP*AP*AP*AP*CP*GP*GP*AP*UP*GP*GP*AP*UP*A)-3'), 0.49 mM RNA (5'-D(*(MU5)P*(MLC)P*(MRC))-R(P*(LG)P*(MU3))-3'), 10 mM potassium phosphate, 0.05 mM sodium EDTA	95% H2O/5% D2O	11 mM	6.2	ambient	274	Varian UNITY 600

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	UNITY	600

NMR Refinement
Method	Details	Software
MD simulated annealing	102 NOE-derived distance constraints, 89 dihedral angle restraints, 25 distance restraints from hydrogen bonds, 216 total restraints	Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	200
Conformers Submitted Total Number	17
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	NMRFAM-SPARKY		Lee
2	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3	collection	VNMR		Varian
4	data analysis	NMRFAM-SPARKY		Lee
5	structure calculation	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman