6SFT | pdb_00006sft

Solution structure of protein ARR_CleD in complex with c-di-GMP

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	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
2	2D 1H-15N HSQC	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 900
3	3D 1H-15N NOESY	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
4	3D 1H-15N TOCSY	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
5	3D 1H-15N NH2 NOESY	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
9	3D 1H-15N NH2 TOCSY	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
6	2D 1H-1H NOESY	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 900
8	3D HNCA	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 800
7	3D HNCO	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 800
13	3D CBCA(CO)NH	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 800
12	3D HBHA(CO)NH	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 800
11	3D CBCANH	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 800
10	3D C(CO)NH	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
15	2D 1H-1H NOESY isotpe filtered	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 900
16	3D 15N t1 interleaved	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
14	3D 15N t2 interleaved	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
17	2D 1H-15N NOE without sturation	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
19	2D 1H-15N NOE with sturation	1.0 mM [U-99% 15N] ARR_CleD, 3.0 mM C2E, 100 mM sodium chloride, 2 mM magnesim chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
24	3D HN(CO)CA	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
18	3D HN(CO)CA without decoupling	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.31 M	6.5	1 atm	298	Bruker DRX 600
25	2D 1H-15N HSQC IPAP	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.47 M	6.5	1 atm	298	Bruker DRX 600
23	2D 1H-15N HSQC IPAP	0.9 mM [U-99% 13C; U-99% 15N] ARR_CleD, 2.7 mM C2E, 100 mM sodium chloride, 2 mM magnesium chloride, 20 mM sodium phosphate, 0.02 % sodium azide	95% H2O/5% D2O	0.31 M	6.5	1 atm	298	Bruker DRX 600

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	DRX	600
2	Bruker	DRX	900
3	Bruker	DRX	800

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	10
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	X-PLOR NIH	2.34	Schwieters, Kuszewski, Tjandra and Clore
2	structure calculation	X-PLOR NIH	2.34	Schwieters, Kuszewski, Tjandra and Clore
3	chemical shift assignment	Sparky	3.115	Goddard
4	peak picking	Sparky	3.115	Goddard
5	processing	NMRPipe	8.9	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
6	data analysis	ModelFree	4	Palmer
7	peak picking	PIPP		Garrett
8	collection	TopSpin		Bruker Biospin