Experiment: 21JG

Solution structure of the complex between fission yeast RNA polymerase subunit Rpb6 and TFIIH Tfb1 PH domain

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
2	2D 1H-15N HSQC	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
3	2D 1H-13C HSQC	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 100 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	100% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
12	2D 1H-13C HSQC aromatic	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 100 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	100% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
4	3D HNCACB	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
5	3D CBCA(CO)NH	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
6	3D HNCA	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
7	3D HN(CO)CA	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
8	3D HNCO	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
9	3D HN(CA)CO	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
10	3D HBHANH	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
11	3D HBHA(CO)NH	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
13	3D 1H-15N NOESY	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
14	3D 1H-13C NOESY	0.4 mM [U-99% 13C; U-99% 15N] Rpb6, 0.8 mM Tfb1, 100 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	100% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
15	2D 1H-15N HSQC	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
16	2D 1H-15N HSQC	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
17	2D 1H-13C HSQC	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 100 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	100% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
18	2D 1H-13C HSQC aromatic	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 100 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	100% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
19	3D HNCACB	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
20	3D CBCA(CO)NH	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
21	3D HNCA	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
22	3D HN(CO)CA	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
23	3D HNCO	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
24	3D HN(CA)CO	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
25	3D HBHANH	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
26	3D HBHA(CO)NH	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 600
27	3D 1H-15N NOESY	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 91 % H2O, 9 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	91% H2O/9% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950
28	3D 1H-13C NOESY	0.4 mM [U-99% 13C; U-99% 15N] Tfb1, 0.8 mM Rpb6, 100 % [U-2H] D2O, 20 mM potassium phosphate, 25 mM sodium chloride, 5 mM [U-2H] d-DTT	100% D2O	25mM NaCl mM	6.8	1 atm	298	Bruker AVANCE III HD 950

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

NMR Refinement
Method	Details	Software
simulated annealing		X-PLOR NIH

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	NMRDraw		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
2	chemical shift assignment	MAGRO		Kobayashi, Iwahara, Koshiba, Tomizawa, Tochio, Guentert, Kigawa and Yokoyama
3	chemical shift assignment	NMRView		Johnson, One Moon Scientific
6	data analysis	TALOS-N		Shen and Bax
4	structure calculation	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore
5	refinement	X-PLOR NIH		Schwieters, Kuszewski, Tjandra and Clore

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

21JG | pdb_000021jg

Solution structure of the complex between fission yeast RNA polymerase subunit Rpb6 and TFIIH Tfb1 PH domain