2MIT | pdb_00002mit

Solution structure of oxidized dimeric form of human defensin 5

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	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
2	3D HNCA	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
3	3D HNCO	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
4	3D HCACO	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
5	3D HNCACB	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
6	3D HCCH-TOCSY	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
7	3D C(CO)NH	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
8	3D H(CCO)NH	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
9	3D HNHB	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
10	3D 1H-15N NOESY	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
11	3D 1H-13C NOESY	0.5 mM [U-99% 13C; U-99% 15N] protein	90% H2O/10% D2O	0	4	ambient	298
12	2D 1H-15N HSQC	0.3 mM [U-99% 13C; U-99% 15N] protein, 0.3 mM protein	90% H2O/10% D2O	0	4	ambient	298
13	2D 1H-1H NOESY	0.3 mM [U-99% 13C; U-99% 15N] protein, 0.3 mM protein	90% H2O/10% D2O	0	4	ambient	298

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

NMR Refinement
Method	Details	Software
simulated annealing, molecular dynamics	Initial structures calculated by minimizing target function. Final CYANA structure refined in explicit water using molecular dynamics.	NMRPipe

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	100
Conformers Submitted Total Number	20
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
2	data analysis	XEASY		Bartels et al.
3	chemical shift assignment	XEASY		Bartels et al.
4	peak picking	XEASY		Bartels et al.
5	chemical shift calculation	CYANA		Guntert, Mumenthaler and Wuthrich
6	structure solution	CYANA		Guntert, Mumenthaler and Wuthrich
7	structure solution	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
8	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
9	refinement	WHAT IF		Vriend
10	refinement	CYANA		Guntert, Mumenthaler and Wuthrich