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BMRB: 19018

2M4Q

NMR structure of E. coli ribosomela decoding site with apramycin

Authors

Puglisi, J.D., Tsai, A., Marshall, R., Viani, E.

Assembly

E. coli ribosomela decoding site with apramycin

Entity

1. RNA (polymer, Thiol state: not present), 27 monomers, 8719.154 Da Detail

GGCGUCACAC CUUCGGGUGA AGUCGCC

2. APRAMYCIN (non-polymer, Thiol state: not present), 539.577 × 3 Da

Total weight

10337.886 Da

Max. entity weight

8719.154 Da

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 99.8 %, Completeness (bb): 100.0 % Detail

Polymer type: polyribonucleotide

	Total	¹H	¹³C	¹⁵N	³¹P
All	99.8 % (459 of 460)	99.6 % (238 of 239)	100.0 % (180 of 180)	100.0 % (14 of 14)	100.0 % (27 of 27)
Suger, PO4	100.0 % (324 of 324)	100.0 % (162 of 162)	100.0 % (135 of 135)		100.0 % (27 of 27)
Nucleobase	99.3 % (135 of 136)	98.7 % (76 of 77)	100.0 % (45 of 45)	100.0 % (14 of 14)
Aromatic	99.2 % (117 of 118)	98.3 % (58 of 59)	100.0 % (45 of 45)	100.0 % (14 of 14)

1. RNA

GGCGUCACAC CUUCGGGUGA AGUCGCC

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.5, Details 1:1 complex of RNA-apramycin

#	Name	Isotope labeling	Concentration
1	RNA	[U-100% 13C; U-100% 15N]	0.5 ~ 1.0 mM
2	APRAMYCIN	natural abundance	0.5 ~ 1.0 mM
3	H2O	natural abundance	90 %
4	D2O	natural abundance	10 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.5, Details unlabeled complex

#	Name	Isotope labeling	Concentration
5	RNA	natural abundance	0.5 ~ 1.0 mM
6	APRAMYCIN	natural abundance	0.5 ~ 1.0 mM
7	H2O	natural abundance	90 %
8	D2O	natural abundance	10 %

Release date

2013-03-10

Citation

The impact of aminoglycosides on the dynamics of translation elongation
Tsai, A., Uemura, S., Johansson, M., Puglisi, E., Marshall, R., Aitken, C., Korlach, J., Ehrenberg, M., Puglisi, J.D.
Cell Rep. (2013), 3, 497-508, PubMed 23416053 , DOI 10.1016/j.celrep.2013.01.027 , Abstract

Related entities 1. RNA, : 1 : 2 : 2 : 7 entities Detail

Experiments performed 9 experiments Detail

1 2D DQF-COSY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.5, Details unlabeled complex

#	Name	Isotope labeling	Concentration
5	RNA	natural abundance	0.5 ~ 1.0 mM
6	APRAMYCIN	natural abundance	0.5 ~ 1.0 mM
7	H2O	natural abundance	90 %
8	D2O	natural abundance	10 %

2 2D 1H-1H NOESY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.5, Details unlabeled complex

#	Name	Isotope labeling	Concentration
5	RNA	natural abundance	0.5 ~ 1.0 mM
6	APRAMYCIN	natural abundance	0.5 ~ 1.0 mM
7	H2O	natural abundance	90 %
8	D2O	natural abundance	10 %

3 2D 1H-1H TOCSY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.5, Details unlabeled complex

#	Name	Isotope labeling	Concentration
5	RNA	natural abundance	0.5 ~ 1.0 mM
6	APRAMYCIN	natural abundance	0.5 ~ 1.0 mM
7	H2O	natural abundance	90 %
8	D2O	natural abundance	10 %

4 2D 1H-15N HSQC