8AR3 | pdb_00008ar3

Solution structure of TLR9 transmembrane and cytoplasmic juxtamembrane regions

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
2	2D 1H-13C HSQC aliphatic constant time	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
3	2D 1H-13C HSQC aliphatic	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
4	2D 1H-13C HSQC aromatic	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
5	3D HNCO	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
6	3D HNCA	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
7	3D HN(CO)CA	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
8	3D HCCH-TOCSY	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
9	3D 1H-15N NOESY	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
10	3D 1H-13C NOESY aliphatic	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
11	2D CBHD aromatic	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
12	3D hCCH-COSY aromatic	1000 uM [U-13C; U-15N] protein, 119 mM LPPC, 41 mM LPPG, 20 mM potassium phosphate, 5 mM TCEP, 1 mM TSP	95% H2O/5% D2O	50 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 600
13	2D 1H-15N HSQC	180 uM [U-15N] protein, 84 mM LPPC, 22 mM LPPG, 30 mM potassium phosphate, 5 mM TCEP, 1 mM TSP, 28 mg/mL dGpG, 80 mM potassium chloride, 0.05 % w/v sodium azide	95% H2O/5% D2O	170 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 800
14	2D 1H-15N IPAP-HSQC	180 uM [U-15N] protein, 84 mM LPPC, 22 mM LPPG, 30 mM potassium phosphate, 5 mM TCEP, 1 mM TSP, 28 mg/mL dGpG, 80 mM potassium chloride, 0.05 % w/v sodium azide	95% H2O/5% D2O	170 mM	7.0	AMBIENT atm	318	Bruker AVANCE III 800

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III	600
2	Bruker	AVANCE III	800

NMR Refinement
Method	Details	Software
torsion angle dynamics		CYANA

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	100
Conformers Submitted Total Number	20
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure calculation	CYANA	3.98.13	Guntert, Mumenthaler and Wuthrich
2	processing	TopSpin	3.0	Bruker Biospin
3	chemical shift assignment	CARA	1.9.7.1	Keller and Wuthrich
4	peak picking	CARA	1.9.7.1	Keller and Wuthrich
5	processing	qMDD	3.2	Maxim Mayzel, Krzysztof Kazimierczuk, Vladislav Orekhov
6	data analysis	PyMOL		Schrodinger, Inc.
7	data analysis	MOLMOL		Koradi, Billeter and Wuthrich