8RLZ | pdb_00008rlz

NMR solution structure of the N-terminal cytoplasmic domain, DdvANt, of the membrane antisigma factor DdvA

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
2	2D 1H-13C HSQC	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
3	3D HNCO	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
4	3D HN(CA)CO	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
5	3D HNCA	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
6	3D HNCACB	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
7	3D CBCA(CO)NH	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
8	3D H(CCO)NH	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
9	3D (H)CCCONH	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
10	3D HNHA	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
11	3D HBHA(CO)NH	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
12	3D (H)N(COCA)NH	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
13	3D H(MCOCA)NH	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
14	2D NOESY	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
15	2D TOCSY	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
16	3D 1H-15N NOESY	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
17	2D NOESY	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800
18	2D TOCSY	0.7 mM DdvANt, 100 mM sodium chloride, 20 mM Tris, 2 mM beta-mercaptoethanol, 0.05 % sodium azide	90% H2O/10% D2O	100 mM	7.0	1 atm	298	Bruker AVANCE NEO 800

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

NMR Refinement
Method	Details	Software
simulated annealing		Amber

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

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin		Bruker Biospin
2	processing	TopSpin		Bruker Biospin
3	processing	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
4	data analysis	NMRView		Johnson, One Moon Scientific
5	structure calculation	CYANA		Guntert, Mumenthaler and Wuthrich
6	refinement	Amber		Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
7	chemical shift assignment	NMRView		Johnson, One Moon Scientific
8	peak picking	NMRView		Johnson, One Moon Scientific

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.