Experiment: 2JY8

NMR structure of the ubiquitin associated (UBA) domain of p62 (SQSTM1) in complex with ubiquitin. RDC refined

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	1 mM [U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
2	3D 1H-15N TOCSY	1 mM [U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
3	3D 1H-15N NOESY	1 mM [U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
4	2D 1H-13C HSQC	1 mM [U-100% 13C; U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
5	3D HNCACB	1 mM [U-100% 13C; U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
6	3D CBCA(CO)NH	1 mM [U-100% 13C; U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
7	3D HCCH-TOCSY	1 mM [U-100% 13C; U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
8	3D 1H-13C NOESY	1 mM [U-100% 13C; U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
9	3D HNCO	1 mM [U-100% 13C; U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
10	3D HN(CA)CO	1 mM [U-100% 13C; U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298
11	2D 1H-15N HSQC-IPAP	1 mM [U-100% 15N] protein, 50 mM potassium phosphate, 50 mM sodium chloride, 0.04 % sodium azide	90% H2O/10% D2O		7	ambient	298

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

NMR Refinement
Method	Details	Software
simulated annealing	In the first stage, high temperature Cartesian dynamics was performed at 1000 K with a time step of 0.005 ps, for 20,000 steps, using the Verlet integrator. During the second cooling phase of the protocol, the temperature was reduced from 1000 K to 100 K in steps of 50 K, with a time step of 5 fs, over 40,000 steps during which the relative weighting of non-bonded energy terms were increased from 10% of their default values to their force field default. These initial structures were then refined with another 10000 cooling step	X-PLOR NIH

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	100
Conformers Submitted Total Number	21
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure solution	X-PLOR NIH	2.14	Schwieters, Kuszewski, Tjandra and Clore
2	collection	XwinNMR	3.5	Bruker Biospin
3	processing	XwinNMR	3.5	Bruker Biospin
4	peak picking	CcpNMR	1.0.10	CCPN
5	data analysis	CcpNMR	1.0.10	CCPN
6	chemical shift assignment	CcpNMR	1.0.10	CCPN
7	geometry optimization	TALOS		Cornilescu, Delaglio and Bax
8	refinement	X-PLOR NIH	2.14	Schwieters, Kuszewski, Tjandra and Clore