BMRB: 16953

The Structure of RNA Internal Loops with Tandem AG Pairs: 5'UAGG/3'GGAU

Authors

Hammond, N.B., Kennedy, S.D., Turner, D.H.

Assembly

5'-R(*GP*AP*CP*AP*AP*GP*UP*GP*UP*CP*A)-3'

Entity

1. 5'-R(*GP*AP*CP*AP*AP*GP*UP*GP*UP*CP*A)-3' (polymer, Thiol state: not present), 9 monomers, 2973.779 × 2 Da Detail

GGUAGGCCA

Total weight

5947.558 Da

Max. entity weight

2973.779 Da

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 69.0 %, Completeness (bb): 63.9 % Detail

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Polymer type: polyribonucleotide

	Total	1H	13C	31P
All	69.0 % (100 of 145)	94.8 % (73 of 77)	32.2 % (19 of 59)	88.9 % (8 of 9)
Suger, PO4	63.9 % (69 of 108)	92.6 % (50 of 54)	24.4 % (11 of 45)	88.9 % (8 of 9)
Nucleobase	83.8 % (31 of 37)	100.0 % (23 of 23)	57.1 % (8 of 14)
Aromatic	81.8 % (27 of 33)	100.0 % (19 of 19)	57.1 % (8 of 14)

1. RNA (5'-R(*GP*GP*UP*AP*GP*GP*CP*CP*A)-3')

GGUAGGCCA

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 274 K, pH 6.1

#	Name	Isotope labeling	Type	Concentration
1	RNA (5'-R(*GP*GP*UP*AP*GP*GP*CP*CP*A)-3')	natural abundance		1 mM
2	sodium chloride	natural abundance		80 mM
3	sodium phosphate	natural abundance		10 mM
4	EDTA	natural abundance		0.5 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 274 K, pH 6.1

#	Name	Isotope labeling	Type	Concentration
7	RNA (5'-R(*GP*GP*UP*AP*GP*GP*CP*CP*A)-3')	natural abundance		1 mM
8	sodium chloride	natural abundance		80 mM
9	sodium phosphate	natural abundance		10 mM
10	EDTA	natural abundance		0.5 mM
11	D2O	natural abundance		100 %

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Release date

2010-07-01

Citation

RNA internal loops with tandem AG pairs: the structure of the 5'GAGU/3'UGAG loop can be dramatically different from others, including 5'AAGU/3'UGAA
Hammond, N.B., Tolbert, B.S., Kierzek, R., Turner, D.H., Kennedy, S.D.
Biochemistry (2010), 49, 5817-5827, PubMed 20481618 , DOI 10.1021/bi100332r , Abstract

Experiments performed 7 experiments Detail