Experiment: 2LR3

Solution structure of the anti-fungal defensin DEF4 (MTR_8g070770) from Medicago truncatula (barrel clover)

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	1 mM [U-99% 15N] protein, 0.01 mM TRIS	93% H2O/7% D2O	0.01	4.4	ambient	293
2	2D 1H-13C HSQC	1 mM [U-99% 15N] protein, 0.01 mM TRIS	100% D2O	0.01	4.4	ambient	293
3	2D 1H-1H TOCSY	1 mM protein, 0.01 mM TRIS	93% H2O/7% D2O	0.01	4.4	ambient	293
4	2D 1H-1H TOCSY	1 mM [U-99% 15N] protein, 0.01 mM TRIS	100% D2O	0.01	4.4	ambient	293
5	2D 1H-1H NOESY	1 mM protein, 0.01 mM TRIS	93% H2O/7% D2O	0.01	4.4	ambient	293
6	2D 1H-1H NOESY	1 mM [U-99% 15N] protein, 0.01 mM TRIS	100% D2O	0.01	4.4	ambient	293
7	3D 1H-15N NOESY	1 mM [U-99% 15N] protein, 0.01 mM TRIS	93% H2O/7% D2O	0.01	4.4	ambient	293
8	3D 1H-15N TOCSY	1 mM [U-99% 15N] protein, 0.01 mM TRIS	93% H2O/7% D2O	0.01	4.4	ambient	293
9	deuterium exchange	1 mM [U-99% 15N] protein, 0.01 mM TRIS	93% H2O/7% D2O	0.01	4.4	ambient	293

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	600
2	Varian	VNMRS	750

NMR Refinement
Method	Details	Software
torsion angle dynamics	STRUCTURE DETERMINATION WAS PERFORMED ITERATIVELY USING CYANA (AUTOMATED NOESY ASSIGNMENTS). A TOTAL OF 20 STRUCTURES OUT OF 100 WITH LOWEST TARGET FUNCTION FROM THE FINAL CYANA CALCULATION WERE TAKEN AND REFINED BY RESTRAINED MOLECULAR DYNAMICS/ENERGY MINIMIZATION IN EXPLICIT WATER (CNS) AFTER ADDING 0% TO THE UPPER BOUNDARY LIMIT OF THE DISTANCE RESTRAINTS AND THE VDW LIMIT TO THE LOWER RESTRAINT. PARAM19 WAS USED FOR THE WATER REFINEMENT CALCULATIONS. Oxidation of all the cys residues was confirmed by the C-beta chemical shifts for the CYS residues determined from a natural abundance 1H-13C-HSQC spectrum. Restraints for the disfulfide bonds were introduced on the basis of position in similar sequences.	Sparky

NMR Ensemble Information
Conformer Selection Criteria	target function
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	data analysis	Sparky	3.115	Goddard
2	peak picking	Sparky	3.115	Goddard
3	processing	Felix	2007	Accelrys Software Inc.
4	structure solution	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
5	refinement	CNS	1.1	Brunger, Adams, Clore, Gros, Nilges and Read
6	data analysis	PSVS	1.3	Bhattacharya and Montelione
7	refinement	CYANA	2.1	Guntert, Mumenthaler and Wuthrich