7JU1 | pdb_00007ju1

The FARFAR-NMR Ensemble of 29-mer HIV-1 Trans-activation Response Element RNA (N=20)

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-13C HSQC	1.0 mM 13C,15N mtTAR_E0	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
2	2D 1H-13C HSQC	1.0 mM 13C,15N mtTAR_EI22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
3	2D 1H-13C HSQC	1.0 mM 13C,15N mtTAR_EII22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
4	2D 1H-13C HSQC	1.0 mM 13C,15N mtTAR_EI3	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
16	2D 1H-15N HSQC	1.0 mM 13C,15N mtTAR_E0	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
15	2D 1H-15N HSQC	1.0 mM 13C,15N mtTAR_EI22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
14	2D 1H-15N HSQC	1.0 mM 13C,15N mtTAR_EII22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
13	2D 1H-15N HSQC	1.0 mM 13C,15N mtTAR_EI3	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
5	2D 1H-13C TROSY	1.0 mM 13C,15N mtTAR_E0	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
8	2D 1H-13C TROSY	1.0 mM 13C,15N mtTAR_EI22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
7	2D 1H-13C TROSY	1.0 mM 13C,15N mtTAR_EII22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
6	2D 1H-13C TROSY	1.0 mM 13C,15N mtTAR_EI3	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
12	2D 1H-13C S3CT HSQC	1.0 mM 13C,15N mtTAR_E0	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
11	2D 1H-13C S3CT HSQC	1.0 mM 13C,15N mtTAR_EI22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
10	2D 1H-13C S3CT HSQC	1.0 mM 13C,15N mtTAR_EII22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
9	2D 1H-13C S3CT HSQC	1.0 mM 13C,15N mtTAR_EI3	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
20	2D 1H-15N HSQC without decoupling	1.0 mM 13C,15N mtTAR_E0	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
19	2D 1H-15N HSQC without decoupling	1.0 mM 13C,15N mtTAR_EI22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
18	2D 1H-15N HSQC without decoupling	1.0 mM 13C,15N mtTAR_EII22	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600
17	2D 1H-15N HSQC without decoupling	1.0 mM 13C,15N mtTAR_EI3	90% H2O/10% D2O	25 mM	6.4	1 atm	298	Bruker AVANCE III 600

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III	600

NMR Refinement
Method	Details	Software
simulated annealing	This is a thermodynamic ensemble in which each confomer is equally populated. The ensemble was generated by sample and select approach which utilize Monte-Carlo simulation annealing.	X-PLOR NIH

NMR Ensemble Information
Conformer Selection Criteria	target function
Conformers Calculated Total Number	20
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
2	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3	chemical shift assignment	Sparky		Goddard
4	peak picking	Sparky		Goddard