Experiment: 2LJJ

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	3D 1H15N-NOESY-HSQC	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	283
2	2D TOCSY	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	283
3	2D HNN-COSY	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	293
4	2D 1H1H-NOESY watergate	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	283
5	2D 1H1H-NOESY watergate	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	293
6	2D 1H-1H NOESY	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	283
7	2D 15N-HSQC imino	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	283
8	2D 15N-HSQC imino	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	293
9	2D 15N-HSQC amino	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	283
10	2D 15N-HSQC amino	1 mM [U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	90% H2O/10% D2O	50	6.2	ambient	293
11	3D HCCH-TOCSY	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
12	3D HCCH-COSY	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
13	3D 1H13C-NOESY-HSQC aro	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
14	3D 1H13C-NOESY-HSQC ali	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
15	2D HcN ali	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
16	2D HcN aro	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
17	2D HccH-TOCSY ADE	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
18	2D H5(c5c4n)H ura	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
19	2D H5(c5c4n)H cyt	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	283
20	2D 13C-HSQC-CT ali	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
21	2D 13C-HSQC-CT aro	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
22	1D 31P	1 mM [U-100% 13C; U-100% 15N] IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
23	3D HCCH-TOCSY	1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
24	3D HCCH-COSY	1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
25	3D 1H1H13C-NOESY-HSQC 13C-filtered	1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
26	3D 1H13C-NOESY-HSQC aro	1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
27	3D 1H13C-NOESY-HSQC ali	1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
28	2D 13C-HSQC ali	1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
29	2D 13C-HSQC aro	1 mM [U-13C; U-15N]-Gua,Ura IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
30	3D HCCH-TOCSY	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
31	3D HCCH-COSY	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
32	3D 1H1H13C-NOESY-HSQC 13C-filtered	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
33	3D 1H13C-NOESY-HSQC aro	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
34	3D 1H13C-NOESY-HSQC ali	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
35	2D TOCSY(HSQC)	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
36	2D HcN ali	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
37	2D 1H-1H NOESY	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
38	2D 13C-HSQC ali	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	283
39	2D 13C-HSQC ali	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293
40	2D 13C-HSQC aro	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	283
41	2D 13C-HSQC aro	1 mM [U-13C; U-15N]-Ade,Cyt IV-B RNA, 10 mM potassium phosphate, 40 mM potassium chloride, 200 uM EDTA	100% D2O	50	6.2	ambient	293

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	600
2	Bruker	AVANCE	750

NMR Refinement
Method	Details	Software
distance geometry, simulated annealing		CYANA

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	200
Conformers Submitted Total Number	20
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	structure solution	CYANA	1.1	Guntert, Mumenthaler and Wuthrich
2	collection	TopSpin	2.1	Bruker Biospin
3	processing	TopSpin	2.1	Bruker Biospin
4	chemical shift assignment	CARA	1.5.5	Rochus Keller
5	peak picking	CARA	1.5.5	Rochus Keller
6	refinement	CNS	1.3	Brunger, Adams, Clore, Gros, Nilges and Read
7	refinement	CYANA	1.1	Guntert, Mumenthaler and Wuthrich

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.

2LJJ | pdb_00002ljj

The structure of subdomain IV-B from the CVB-3 IRES

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.id_divider{ color: #ccc; padding: 0 10px 0 10px; } .extended_id_info{ color: #ccc; font-size: 18px; position: relative; top: -10px; left: 4px; } 2LJJ | pdb_00002ljj

The structure of subdomain IV-B from the CVB-3 IRES

2LJJ | pdb_00002ljj