2MEJ | pdb_00002mej

Solution Structure of the Complex Between BCL-xL and the p53 Core Domain determined with PRE restraints

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	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
2	2D 1H-15N HSQC	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53, 0.65 mM BCL-xL	93% H2O/7% D2O	0.05	7.0	ambient	298
3	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] p53, 0.1 mM BCL-xL_C151MTSL	93% H2O/7% D2O	0.05	7.0	ambient	298
4	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] p53, 0.1 mM BCL-xL_C151MTSL	93% H2O/7% D2O	0.05	7.0	ambient	298
5	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] p53, 0.1 mM BCL-xL_C151S_S122C MTSL	93% H2O/7% D2O	0.05	7.0	ambient	298
6	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] p53, 0.1 mM BCL-xL_C151S_S122C MTSL	93% H2O/7% D2O	0.05	7.0	ambient	298
7	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] p53, 0.1 mM BCL-xL_C151S_S2C MTSL	93% H2O/7% D2O	0.05	7.0	ambient	298
8	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] p53, 0.1 mM BCL-xL_C151S_S2C MTSL	93% H2O/7% D2O	0.05	7.0	ambient	298
9	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] BCL-xL, 0.1 mM Co_p53	93% H2O/7% D2O	0.05	7.0	ambient	298
10	2D 1H-15N HSQC	0.1 mM [U-98% 15N; U-98% 2H] BCL-xL, 0.1 mM p53	93% H2O/7% D2O	0.05	7.0	ambient	298
11	3D 1H-15N NOESY	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53, 0.65 mM BCL-xL	93% H2O/7% D2O	0.05	7.0	ambient	298
12	3D HNCA	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
13	3D HNCACB	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
14	3D HNCO	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
15	3D HN(CO)CA	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
16	2D 1H-13C HSQC aliphatic	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
17	3D HCCH-TOCSY	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
18	3D 1H-13C NOESY aliphatic	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53	93% H2O/7% D2O	0.05	7.0	ambient	298
19	2D 1H-13C HSQC aliphatic	0.6 mM [U-98% 13C; U-98% 15N; U-98% 2H] p53, 0.65 mM BCL-xL	93% H2O/7% D2O	0.05	7.0	ambient	298
20	2D CBCACO	0.1 mM [U-98% 15N; U-98% 2H] BCL-xL, 0.1 mM Co_p53	93% H2O/7% D2O	0.05	7.0	ambient	298
21	2D CBCACO	0.1 mM [U-98% 15N; U-98% 2H] BCL-xL, 0.1 mM p53	93% H2O/7% D2O	0.05	7.0	ambient	298
22	2D 1H-13C HSQC aliphatic	0.1 mM [U-98% 15N; U-98% 2H] BCL-xL, 0.1 mM Co_p53	93% H2O/7% D2O	0.05	7.0	ambient	298
23	2D 1H-13C HSQC aliphatic	0.1 mM [U-98% 15N; U-98% 2H] BCL-xL, 0.1 mM p53	93% H2O/7% D2O	0.05	7.0	ambient	298

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

NMR Refinement
Method	Details	Software
molecular dynamics	ENERGY MINIMIZATION WITH 100 STEPS STEEPEST GRADIENT DESCENT FOLLOWED BY 100 CONJUGATE GRADIENT DESCENT STEPS	TopSpin

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	200
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Additional NMR Experimental Information
Details	HADDOCK STARTING STRUCTURES: FOR CHAIN A (BCL-XL), THE LOWEST ENERGY CONFORMER OF PDB ENTRY 2ME8 DEPOSITED BY THE AUTHORS; FOR CHAIN B (P53 DNA BINDING DOMAIN), CHAIN C OF PDB ENTRY 2AC0, THE P53 CRYSTAL STRUCTURE.

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin	2.1	Bruker Biospin
2	processing	TopSpin	2.1	Bruker Biospin
3	data analysis	CARA		Keller, R.L.J.
4	chemical shift assignment	CARA		Keller, R.L.J.
5	structure solution	HADDOCK		Bonvin, A.
6	refinement	Amber		Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman