7BQQ | pdb_00007bqq

Solution NMR structure of fold-Z Gogy; de novo designed protein with an asymmetric all-alpha topology

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 800
2	2D 1H-13C HSQC aliphatic	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 800
3	2D 1H-13C HSQC aromatic	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 800
4	3D BEST-HNCO	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 800
5	3D BEST-HNCACB	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 800
8	3D HCCH-TOCSY aliphatic	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 600
7	3D 1H-15N NOESY	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 600
6	3D 1H-13C NOESY aliphatic	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 600
9	3D 1H-13C NOESY aromatic	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 800
10	2D 1H-15N HSQC IPAP	0.9 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.20 mM sodium phosphate, 50 mM sodium chloride	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 950
11	2D 1H-15N HSQC IPAP	0.2 mM [U-100% 13C; U-100% 15N] Gogy, 6.8 mM potassium phosphate, 3.2 mM sodium phosphate, 50 mM sodium chloride, 7 mg/mL Pf1 phage	95% H2O/5% D2O	60 mM	6.52	1 atm	303	Bruker AVANCE III 950

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE III	600
2	Bruker	AVANCE III	800
3	Bruker	AVANCE III	950

NMR Refinement
Method	Details	Software
molecular dynamics		Amber

NMR Ensemble Information
Conformer Selection Criteria	target function
Conformers Calculated Total Number	200
Conformers Submitted Total Number	20
Representative Model	1 (target function)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin	3.2	Bruker Biospin
2	processing	NMRPipe	2017	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3	peak picking	MAGRO	2.01.14	Updated version of Kujira (Kobayashi, N. et al., 2007)
4	data analysis	NMRView	9.0	Johnson, One Moon Scientific
5	chemical shift assignment	CYANA	3.98	Guntert, Mumenthaler and Wuthrich
6	data analysis	TALOS	2017	Cornilescu, Delaglio and Bax
7	structure calculation	CYANA	3.98	Guntert, Mumenthaler and Wuthrich
8	refinement	Amber	12	Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman

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 R01GM157729.