2JXN | pdb_00002jxn

Solution Structure of S. cerevisiae PDCD5-like Protein Ymr074cp

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	0.2 mM [U-100% 15N] N116 A7C, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, 0.2 mM 1-oxyl-2, 2, 5, 5-tetramethyl-3-pyrroline-3-methylmethanethiosulfonate	90% H2O/10% D2O		6.0	1 atm	298
2	2D 1H-15N HSQC	0.2 mM [U-100% 15N] N116 A7C, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, 0.2 mM 1-oxyl-2, 2, 5, 5-tetramethyl-3-pyrroline-3-methylmethanethiosulfonate, 1 mM ascorbate	90% H2O/10% D2O		6.0	1 atm	298
3	2D 1H-15N IPAP HSQC	1 mM [U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
4	2D 1H-15N IPAP HSQC	1 mM [U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, 7 or 8 % polyacrylamide gel	90% H2O/10% D2O		6.0	1 atm	298
5	3D CBCA(CO)NH	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
6	3D CBCANH	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
7	3D HNCA	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
8	3D HN(CO)CA	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
9	3D HNCO	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
10	3D HN(CA)CO	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
11	3D C(CO)NH-TOCSY	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
12	3D HBHA(CBCACO)NH	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
13	3D H(CCO)NH-TOCSY	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
14	3D 15N-edited-NOESY-HSQC	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
15	3D HCCH-COSY	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 100 % [U-100% 2H] D2O	100% D2O		6.0	1 atm	298
16	3D HCCH-TOCSY	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 100 % [U-100% 2H] D2O	100% D2O		6.0	1 atm	298
17	3D 13C-edited-NOESY-HSQC	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 100 % [U-100% 2H] D2O	100% D2O		6.0	1 atm	298
18	H-D exchange	1 mM [U-100% 13C; U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 100 % [U-100% 2H] D2O	100% D2O		6.0	1 atm	295
19	NMR relaxation	1 mM [U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
20	NMR relaxation	1 mM [U-100% 15N] N116, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O	90% H2O/10% D2O		6.0	1 atm	298
21	2D 1H-15N HSQC	0.2 mM [U-100% 15N] N116 A11C, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, 0.2 mM 1-oxyl-2, 2, 5, 5-tetramethyl-3-pyrroline-3-methylmethanethiosulfonate	90% H2O/10% D2O		6.0	1 atm	298
22	2D 1H-15N HSQC	0.2 mM [U-100% 15N] N116 A11C, 20 mM sodium phosphate, 50 mM sodium chloride, 1 mM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, 0.2 mM 1-oxyl-2, 2, 5, 5-tetramethyl-3-pyrroline-3-methylmethanethiosulfonate, 1 mM ascorbate	90% H2O/10% D2O		6.0	1 atm	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	600
2	Bruker	AVANCE	500

NMR Refinement
Method	Details	Software
distance geometry, molecular dynamics, torsion angle dynamics		NMRPipe

NMR Ensemble Information
Conformer Selection Criteria	back calculated data agree with experimental NOESY spectrum
Conformers Calculated Total Number	400
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	processing	NMRPipe	2.2	Delaglio, F. et al.
2	peak picking	Sparky	3.110	Goddard, T.D. et al.
3	chemical shift assignment	Sparky	3.110	Goddard, T.D. et al.
4	data analysis	TALOS		Cornilescu, G. et al.
5	structure solution	X-PLOR NIH	2.18	Schwieters, C.D. et al.
6	refinement	X-PLOR NIH	2.18	Schwieters, C.D. et al.
7	geometry optimization	Procheck		Laskowski, R.A. et al.
8	data analysis	MOLMOL		Koradi, R. et al.