Experiment: 25NZ

Solution structure of the DNA-binding domain of Escherichia coli H-NS in complex with DNA

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950
2	3D HNCACB	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
3	3D CBCA(CO)NH	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
4	3D HNCO	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
5	2D 1H-13C HSQC	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
6	3D HBHA(CO)NH	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
7	3D HCCH-COSY	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
8	3D CCH-COSY	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
9	3D CCH-TCOSY	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
10	2D CBHD	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
11	2D CBHE	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 500
12	2D 1H-13C HSQC aromatic	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950
13	3D 1H-13C NOESY aromatic	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950
14	2D F1, F2-15N/13C filtered 1H-1H NOSEY	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950
15	3D 1H-15N NOESY	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950
16	3D 1H-13C NOESY	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950
17	3D F1-15N/13C filtered, F2-15N edited NOSEY-HSQC	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950
18	3D F1-15N/13C filtered, F2-13C edited NOSEY-HSQC	0.5 mM 15N 13C H-NS 85-137, 5 mM Top1-DNA	95% H2O/5% D2O	150 (50 mM NaH2PO4, 100 mM NaCl, 0.2 mM EDTA) mM	5.7	1 atm	298	Bruker AVANCE III HD 950

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III HD	500
2	Bruker	AVANCE III HD	950

NMR Refinement
Method	Details	Software
simulated annealing		CYANA
simulated annealing		Amber

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

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
2	chemical shift assignment	NMRView		Johnson, One Moon Scientific
3	peak picking	NMRView		Johnson, One Moon Scientific
4	structure calculation	CYANA		Guntert, Mumenthaler and Wuthrich
5	refinement	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
6	data analysis	PROCHECK / PROCHECK-NMR		Laskowski, MacArthur, Smith, Jones, Hutchinson, Morris, Moss and Thornton