2L0K

NMR solution structure of a transcription factor SpoIIID 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	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
2	2D 1H-13C HSQC	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
3	3D HNCACB	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
4	3D CBCA(CO)NH	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
5	3D HNCO	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
6	3D HN(CO)CA	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
7	3D 1H-15N NOESY	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
8	3D 1H-13C NOESY	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298
9	3D HCCH-TOCSY	10 mM potassium phosphate-1, 100 mM sodium chloride-2, 15 mM sodium azide-3, 0.05 mM DSS-4, 5.5 M [U-100% 2H] D2O-5	90% H2O/10% D2O	0.1	7	ambient	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	Avance	900
2	Varian	INOVA	600

NMR Refinement
Method	Details	Software
torsion angle dynamics		CYANA

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

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
2	collection	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
3	data analysis	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
4	peak picking	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
5	processing	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
6	refinement	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
7	structure solution	CYANA	2.1	Guntert, Mumenthaler and Wuthrich
8	chemical shift assignment	CYANA	2.1	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
9	collection	CYANA	2.1	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
10	data analysis	CYANA	2.1	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
11	peak picking	CYANA	2.1	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
12	processing	CYANA	2.1	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
13	refinement	CYANA	2.1	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
14	structure solution	CYANA	2.1	Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm
15	chemical shift assignment	CYANA	2.1	Accelrys Software Inc.
16	collection	CYANA	2.1	Accelrys Software Inc.
17	data analysis	CYANA	2.1	Accelrys Software Inc.
18	peak picking	CYANA	2.1	Accelrys Software Inc.
19	processing	CYANA	2.1	Accelrys Software Inc.
20	refinement	CYANA	2.1	Accelrys Software Inc.
21	structure solution	CYANA	2.1	Accelrys Software Inc.
22	chemical shift assignment	CYANA	2.1	Koradi, Billeter and Wuthrich
23	collection	CYANA	2.1	Koradi, Billeter and Wuthrich
24	data analysis	CYANA	2.1	Koradi, Billeter and Wuthrich
25	peak picking	CYANA	2.1	Koradi, Billeter and Wuthrich
26	processing	CYANA	2.1	Koradi, Billeter and Wuthrich
27	refinement	CYANA	2.1	Koradi, Billeter and Wuthrich
28	structure solution	CYANA	2.1	Koradi, Billeter and Wuthrich
29	chemical shift assignment	CYANA	2.1	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
30	collection	CYANA	2.1	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
31	data analysis	CYANA	2.1	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
32	peak picking	CYANA	2.1	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
33	processing	CYANA	2.1	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
34	refinement	CYANA	2.1	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
35	structure solution	CYANA	2.1	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
36	chemical shift assignment	CYANA	2.1	Johnson, One Moon Scientific
37	collection	CYANA	2.1	Johnson, One Moon Scientific
38	data analysis	CYANA	2.1	Johnson, One Moon Scientific
39	peak picking	CYANA	2.1	Johnson, One Moon Scientific
40	processing	CYANA	2.1	Johnson, One Moon Scientific
41	refinement	CYANA	2.1	Johnson, One Moon Scientific
42	structure solution	CYANA	2.1	Johnson, One Moon Scientific
43	chemical shift assignment	CYANA	2.1	Laskowski and MacArthur
44	collection	CYANA	2.1	Laskowski and MacArthur
45	data analysis	CYANA	2.1	Laskowski and MacArthur
46	peak picking	CYANA	2.1	Laskowski and MacArthur
47	processing	CYANA	2.1	Laskowski and MacArthur
48	refinement	CYANA	2.1	Laskowski and MacArthur
49	structure solution	CYANA	2.1	Laskowski and MacArthur
50	chemical shift assignment	CYANA	2.1	Cornilescu, Delaglio and Bax
51	collection	CYANA	2.1	Cornilescu, Delaglio and Bax
52	data analysis	CYANA	2.1	Cornilescu, Delaglio and Bax
53	peak picking	CYANA	2.1	Cornilescu, Delaglio and Bax
54	processing	CYANA	2.1	Cornilescu, Delaglio and Bax
55	refinement	CYANA	2.1	Cornilescu, Delaglio and Bax
56	structure solution	CYANA	2.1	Cornilescu, Delaglio and Bax
57	chemical shift assignment	CYANA	2.1	Bruker Biospin
58	collection	CYANA	2.1	Bruker Biospin
59	data analysis	CYANA	2.1	Bruker Biospin
60	peak picking	CYANA	2.1	Bruker Biospin
61	processing	CYANA	2.1	Bruker Biospin
62	refinement	CYANA	2.1	Bruker Biospin
63	structure solution	CYANA	2.1	Bruker Biospin
64	chemical shift assignment	CYANA	2.1	Varian
65	collection	CYANA	2.1	Varian
66	data analysis	CYANA	2.1	Varian
67	peak picking	CYANA	2.1	Varian
68	processing	CYANA	2.1	Varian
69	refinement	CYANA	2.1	Varian
70	structure solution	CYANA	2.1	Varian

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.

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2L0K

NMR solution structure of a transcription factor SpoIIID in complex with DNA