6MCE

Solution structure of HIV-1 TAR with Tat RNA Binding Domain

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-1H NOESY	0.5 mM TAR RNA with deuterated NTPs in a combo of either AC, GU, or GA, 0.5 mM Tat RNA Binding Domain	90% H2O/10% D2O	10mM NaCl, 70mM NaCl, 0.1mM EDTA mM	5.4	100000 Pa	298	Bruker DMX 700
2	2D 1H-1H NOESY	0.5 mM TAR RNA deuterated NTPs in a combo of either AC, GU, or GA, 0.5 mM Tat RNA Binding Domain	100% D2O	10mM NaCl, 70mM NaCl, 0.1mM EDTA mM	5.4	100000 Pa	298	Bruker DMX 700
3	2D 1H-15N HSQC	0.5 mM [U-13C; U-15N] TAR RNA, 0.5 mM Tat RNA Binding Domain	90% H2O/10% D2O	10mM NaCl, 70mM NaCl, 0.1mM EDTA mM	5.4	100000 Pa	298	Bruker DMX 700
4	2D 1H-13C HSQC	0.5 mM TAR RNA, 0.5 mM [U-13C; U-15N] Tat RNA Binding Domain selectively labeled in each of the peptides: 1) R49, K50, R57, A58 2) K51, R52, Q54,R55 3) R53, Q54, R56	100% D2O	10mM NaCl, 70mM NaCl, 0.1mM EDTA mM	5.4	100000 Pa	298	Bruker DMX 700
5	2D 1H-13C HSQC	0.5 mM TAR RNA, 0.5 mM [U-13C; U-15N] Tat RNA Binding Domain selectively labeled in each of the peptides: 1) R49, K50, R57, A58 2) K51, R52, Q54,R55 3) R53, Q54, R56	100% D2O	10mM NaCl, 70mM NaCl, 0.1mM EDTA mM	5.4	100000 Pa	298	Bruker DMX 700

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	DMX	700

NMR Refinement
Method	Details	Software
simulated annealing		Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with acceptable covalent geometry
Conformers Calculated Total Number	20
Conformers Submitted Total Number	10
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin		Bruker Biospin
2	peak picking	NMRView		Johnson, One Moon Scientific
3	chemical shift assignment	NMRView		Johnson, One Moon Scientific
4	data analysis	CYANA		Guntert, Mumenthaler and Wuthrich
5	processing	CYANA		Guntert, Mumenthaler and Wuthrich
6	structure calculation	CYANA		Guntert, Mumenthaler and Wuthrich
7	refinement	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman