2K05

Structure of SDF1 in complex with the CXCR4 N-terminus containing sulfotyrosines at postitions 7, 12 and 21

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	3D_15N-separated_NOESY	.338 mM [U-100% 13C; U-100% 15N] CXCL12/SDF1-alpha, .97 mM CXCR4, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308
2	3D_13C-separated_NOESY	.338 mM [U-100% 13C; U-100% 15N] CXCL12/SDF1-alpha, .97 mM CXCR4, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308
3	3D_13C-separated_NOESY (AROMATIC)	.338 mM [U-100% 13C; U-100% 15N] CXCL12/SDF1-alpha, .97 mM CXCR4, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308
4	3D_13C-F1-filtered_13C-F3-separateded_NOESY	.338 mM [U-100% 13C; U-100% 15N] CXCL12/SDF1-alpha, .97 mM CXCR4, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308
5	3D_15N-separated_NOESY	1.07 mM [U-100% 13C; U-100% 15N] CXCR4, 0.67 mM CXCL12/SDF1-alpha, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308
6	3D_13C-separated_NOESY	1.07 mM [U-100% 13C; U-100% 15N] CXCR4, 0.67 mM CXCL12/SDF1-alpha, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308
7	3D_13C-separated_NOESY (AROMATIC)	1.07 mM [U-100% 13C; U-100% 15N] CXCR4, 0.67 mM CXCL12/SDF1-alpha, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308
8	3D_13C-F1-filtered_13C-F3-separateded_NOESY	1.07 mM [U-100% 13C; U-100% 15N] CXCR4, 0.67 mM CXCL12/SDF1-alpha, 90% H2O, 10% D2O	90% H2O/10% D2O	21	6.8	AMBIENT	308

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

NMR Refinement
Method	Details	Software
AUTOMATED METHODS WERE USED FOR BACKBONE CHEMICAL SHIFT ASSIGNMENT AND ITERATIVE NOE REFINEMENT. FINAL STRUCTURES WERE OBTAINED BY MOLECULAR DYNAMICS IN EXPLICIT SOLVENT.	CXCL12/CXCR4 COMPLEX STRUCTURES ARE BASED ON A TOTAL OF 2092 NOE CONSTRAINTS (722 INTRA, 566 SEQUENTIAL, 238 MEDIUM, 420 LONG RANGE, 116 CXCL12 INTERMONOMER CONSTRAINTS (CXCL12 TO CXCL12), AND 86 INTERMOLECULAR CONSTRAINTS (CXCL12 TO CXCR4)) AND 128 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. CONSTRAINT WERE IN ONE ASSIGNED AND VALIDATED IN ONE CXCL12/CXCR4 COMPLEX AND THEN DUPLICATED TO GENERATE A SYMMETRY RELATED CONSTRAINT IN THE SECOND COMPLEX. CONSTRAINT TOTALS LISTED ABOVE INCLUDE CONSTRAINTS FROM BOTH MONOMERS.	CYANA

NMR Ensemble Information
Conformer Selection Criteria	target function
Conformers Calculated Total Number	100
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure solution	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
2	collection	XwinNMR	3.5	Bruker
3	refinement	X-PLOR NIH	2.9.3	Schwieters, Kuszewski, Tjandra and Clore
4	processing	NMRPipe	2004	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
5	data analysis	XEASY	1.3	Bartels et al.
6	peak picking	SPSCAN	1.1.0	Glaser
7	chemical shift assignment	GARANT	2.1	Bartels, Guntert, Billeter and Wuthrich

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.