Experiment: 2KZT

Structure of the Tandem MA-3 Region of Pdcd4

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	3D CBCA(CO)NH	0.15-0.5mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308
2	3D HNCO	0.15-0.5mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308
3	2D 1H-15N HSQC	0.5mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308
4	3D 1H-15N NOESY-HSQC	0.5mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308
5	3D TROSY HN(CO)CA	0.15-0.5mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308
6	3D HNCA	0.15-0.5mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308
7	3D IPAP TROSY HNCO	0.15-0.5mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308
8	3D IPAP TROSY HNCO	0.25mM [U-99% 13C; U-99% 15N] Pdcd4 MA-3 M-C; 25mM sodium phosphate; 100mM sodium chloride; 2.5mM DTT; 2.5mM TCEP; 0.05mM EDTA; 0.2mM AEBSF Protease Inhibitor; 0.02% sodium azide; 10mg/ml Pf1 phage; 95% H2O/5% D2O	95% H2O/5% D2O	150	6.5	ambient	308

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

NMR Refinement
Method	Details	Software
HADDOCK	REFINED AS PART OF THE HADDOCK DOCKING PROTOCOL	TopSpin

NMR Ensemble Information
Conformer Selection Criteria	acceptable RMSD to lowest HADDOCK score structure
Conformers Calculated Total Number	200
Conformers Submitted Total Number	73
Representative Model	1 (lowest haddock score)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin	2.1	Bruker Biospin
2	processing	TopSpin	2.1	Bruker Biospin
3	chemical shift assignment	Sparky	3.110	Goddard
4	data analysis	Sparky	3.110	Goddard
5	docking	HADDOCK	2.0	Cyril Dominguez, Rolf Boelens and Alexandre M.J.J. Bonvin
6	refinement	HADDOCK	2.0	Cyril Dominguez, Rolf Boelens and Alexandre M.J.J. Bonvin
7	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore