5TM0

Solution NMR structures of two alternative conformations of E. coli tryptophan repressor in dynamic equilibrium

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
2	2D 1H-13C HSQC	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
3	3D HNCO	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
4	3D HNCA	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
5	3D CBCA(CO)NH	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
10	3D HCCH-TOCSY	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
9	3D 1H-13C NOESY aliphatic	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
8	3D 1H-13C NOESY aromatic	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
7	3D 1H-15N NOESY	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
6	3D HN(CO)CA	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
12	3D HBHA(CO)NH	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800
11	3D HNCACB	0.5 mM [U-100% 13C; U-100% 15N] Tryptohan aporepressor, 10 mM Tris-HCl buffer pH 5.7, 100 mM NaCl, 5 mM DTT, 0.02 % sodium azide	90% H2O/10% D2O	100 mM	5.7	1 atm	313	Bruker AVANCE 800

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

NMR Refinement
Method	Details	Software
molecular dynamics	The coordinates provided are for two sets of models, each representing an alternative protein conformation that differ particularly in the segment of the protein sequence corresponding to helix E.	GROMACS

NMR Ensemble Information
Conformer Selection Criteria	all calculated structures submitted
Conformers Calculated Total Number	15
Conformers Submitted Total Number	15
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	AutoAssign	2.1.1	Zimmerman, Moseley, Kulikowski and Montelione
2	collection	TopSpin	2.3	Bruker Biospin
3	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
4	peak picking	Sparky	3.0	Goddard
5	structure calculation	GROMACS	4.6.5	Berendsen H, van der Spoel D, van Drunen R.
6	refinement	GROMACS	4.6.5	Berendsen H, van der Spoel D, van Drunen R.

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.