2ME6

NMR Structure of the homeodomain transcription factor Gbx1 from Homo sapiens in complex with the DNA sequence CGACTAATTAGTCG

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
2	3D 1H-13C NOESY aliphatic	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
3	3D 1H-13C NOESY aromatic	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
4	3D 1H-15N NOESY	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
5	APSY 4D-HACANH	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
6	APSY 5D-CBCACONH	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
7	APSY 5D-HACACONH	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
8	2D 13C/15N double-filtered 1H-1H NOESY	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	95% H2O/5% D2O	0.220	6.5	ambient	308
9	2D 13C/15N double-filtered 1H-1H NOESY	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	100% D2O	0.220	6.5	ambient	308
10	2D 1H-1H TOCSY	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	100% D2O	0.220	6.5	ambient	308
11	3D F2-edited, F3-filtered 1H-13C NOESY	0.8 mM [U-98% 13C; U-98% 15N] protein, 50 mM sodium chloride, 20 mM sodium phosphate, 5 mM sodium azide, 0.8 mM DNA	100% D2O	0.220	6.5	ambient	308

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	600
2	Bruker	AVANCE	800

NMR Refinement
Method	Details	Software
molecular dynamics		CNS

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	200
Conformers Submitted Total Number	4
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure solution	CNS		Brunger A. T. et.al.
2	chemical shift assignment	CNS		Brunger A. T. et.al.
3	structure solution	CNS		Keller and Wuthrich
4	chemical shift assignment	CNS		Keller and Wuthrich
5	structure solution	CNS		Brunger A. T. et.al.
6	chemical shift assignment	CNS		Brunger A. T. et.al.
7	structure solution	CNS		Keller and Wuthrich
8	chemical shift assignment	CNS		Keller and Wuthrich
9	chemical shift assignment	UNIO		Herrmann and Wuthrich
10	structure solution	UNIO		Herrmann and Wuthrich
11	processing	TopSpin		Bruker Biospin
12	collection	TopSpin		Bruker Biospin
13	refinement	ARIA		Linge, O'Donoghue and Nilges
14	refinement	HADDOCK		Alexandre Bonvin
15	data analysis	XEASY		Bartels et al.
16	structure solution	3D_DART		Van Dijk and Bovin

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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.