2LP5 | pdb_00002lp5

Native Structure of the Fyn SH3 A39V/N53P/V55L

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	1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
2	3D 1H-15N NOESY-HSQC	0.7 mM [U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
3	3D HNCO	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
4	3D HNCA	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
5	3D C(CO)NH	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
6	2D 1H-13C CTHSQC	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	100% D2O	50	7.0	ambient	293.15
7	2D 1H-13C HSQC	1.0 mM [1'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
8	15N SQ CPMG	1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
9	15N SQ CPMG	1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
10	15N TROSY/AntiTROSY CPMG	1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
11	15N TROSY/AntiTROSY CPMG	1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
12	15N SQ CPMG	0.8 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 24 mg/ml Pf1 phage	90% H2O/10% D2O	50	7.0	ambient	293.15
13	15N SQ CPMG	0.8 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 24 mg/ml Pf1 phage	90% H2O/10% D2O	50	7.0	ambient	293.15
14	15N TROSY/AntiTROSY CPMG	0.8 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 24 mg/ml Pf1 phage	90% H2O/10% D2O	50	7.0	ambient	293.15
15	15N TROSY/AntiTROSY CPMG	0.8 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 24 mg/ml Pf1 phage	90% H2O/10% D2O	50	7.0	ambient	293.15
16	15N SQ CPMG	0.5 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, uncertain v/v PEG/hexanol	90% H2O/10% D2O	50	7.0	ambient	293.15
17	15N SQ CPMG	0.5 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, uncertain v/v PEG/hexanol	90% H2O/10% D2O	50	7.0	ambient	293.15
18	15N TROSY/AntiTROSY CPMG	0.5 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, uncertain v/v PEG/hexanol	90% H2O/10% D2O	50	7.0	ambient	293.15
19	15N TROSY/AntiTROSY CPMG	0.5 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, uncertain v/v PEG/hexanol	90% H2O/10% D2O	50	7.0	ambient	293.15
20	1HN SQ CPMG	1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
21	1HN SQ CPMG	1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
22	15N SQ CPMG	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
23	13CO SQ CPMG	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
24	13CO SQ CPMG	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
25	15N SQ CPMG	1.2 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
26	13CO SQ CPMG	1.2 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
27	13CO SQ CPMG	1.2 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
28	15N SQ CPMG	0.8 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 36 mg/ml Pf1 phage	90% H2O/10% D2O	50	7.0	ambient	293.15
29	13CO SQ CPMG	0.8 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 36 mg/ml Pf1 phage	90% H2O/10% D2O	50	7.0	ambient	293.15
30	13CO SQ CPMG	0.8 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 36 mg/ml Pf1 phage	90% H2O/10% D2O	50	7.0	ambient	293.15
31	13CA SQ CPMG	1.0 mM [2'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	100% D2O	50	7.0	ambient	293.15
32	13CA SQ CPMG	1.0 mM [2'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	100% D2O	50	7.0	ambient	293.15
33	13CA SQ CPMG	1.2 mM [1'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	100% D2O	50	7.0	ambient	293.15
34	13CA SQ CPMG	1.2 mM [1'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	100% D2O	50	7.0	ambient	293.15
35	1HA SQ CPMG	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	100% D2O	50	7.0	ambient	293.15
36	1HA SQ CPMG	1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	100% D2O	50	7.0	ambient	293.15
37	13CH3 SQ CPMG	1.0 mM [1'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15
38	13CH3 SQ CPMG	1.0 mM [1'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate	90% H2O/10% D2O	50	7.0	ambient	293.15

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	800
2	Varian	INOVA	600
3	Varian	INOVA	500
4	Varian	INOVA	500

NMR Refinement
Method	Details	Software
simulated annealing	Torsion angle molecular dynamics simulated annealing refinement of an initial model based on the crystal structure of the Fyn SH3 domain mutant N53I/V55L (PDB 3CQT) with NOE distance, chemical shift derived backbone torsion dihedral, and RDC restraints	NMRPipe

NMR Ensemble Information
Conformer Selection Criteria	structures with the lowest energy
Conformers Calculated Total Number	1000
Conformers Submitted Total Number	10
Representative Model	1 (lowest energy)

Additional NMR Experimental Information
Details	The CPMG NMR relaxation dispersion experiments were supplemented with sign determination experiments as appropriate.

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	processing	NMRPipe	3.0 Rev 2007.068.09.07	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
2	spectra analysis	NMRViewJ	8.0.rc4	Johnson, One Moon Scientific
3	peak picking	MUNIN	1.0	Orekhov, Ibraghimov, Billeter
4	cpmg analysis	CATIA	0.52p	Hansen
5	structure solution	ALMOST	2.0	Cavalli
6	backbone torsion dihedral angle restraints	TALOS+	1.01F	Shen, Delaglio, Cornilescu, Bax
7	refinement	ALMOST	2.0	Cavalli