BMRB: 19040

structure of 2'-5' AG1 lariat forming ribozyme in its inactive state

Authors

Carlomagno, T., Amata, I., Codutti, L., Falb, M., Fohrer, J., Simon, B.

Assembly

2'-5' AG1 lariat forming ribozyme

Entity

1. 2'-5' AG1 lariat forming ribozyme (polymer, Thiol state: not present), 59 monomers, 19226.33 Da Detail

XGAAGAAAGG GCUUCGGCCA CUCAAACUAC AGAGACGCCA GUCACUCAGA UAUCCUGGU

Formula weight

19226.33 Da

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 98.3 %, Completeness: 83.5 %, Completeness (bb): 85.9 % Detail

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Polymer type: polyribonucleotide

	Total	1H	13C	15N
All	83.5 % (770 of 922)	83.6 % (423 of 506)	87.0 % (341 of 392)	25.0 % (6 of 24)
Suger, PO4	85.9 % (548 of 638)	87.4 % (304 of 348)	84.1 % (244 of 290)
Nucleobase	78.2 % (222 of 284)	75.3 % (119 of 158)	95.1 % (97 of 102)	25.0 % (6 of 24)
Aromatic	83.3 % (210 of 252)	84.9 % (107 of 126)	95.1 % (97 of 102)	25.0 % (6 of 24)

1. RNA (59-MER)

XGAAGAAAGG GCUUCGGCCA CUCAAACUAC AGAGACGCCA GUCACUCAGA UAUCCUGGU

Show sample condition

Sample #1

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.6, Details A-labelled

#	Name	Isotope labeling	Type	Concentration
1	ADENOSINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		400 uM
2	D2O	natural abundance		100 %

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.6

#	Name	Isotope labeling	Type	Concentration
3	GUANOSINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		300 uM
4	GUANOSINE-5'-TRIPHOSPHATE	[U-100% 13C; U-100% 15N]		300 uM
5	D2O	natural abundance		100 %

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.6

#	Name	Isotope labeling	Type	Concentration
6	CYTIDINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		500 uM
7	D2O	natural abundance		100 %

Sample #4

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.6

#	Name	Isotope labeling	Type	Concentration
8	URIDINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		300 uM
9	D2O	natural abundance		100 %

Sample #5

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.6

#	Name	Isotope labeling	Type	Concentration
10	ADENOSINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		500 uM
11	URIDINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		500 uM
12	D2O	natural abundance		100 %

Sample #6

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.6

#	Name	Isotope labeling	Type	Concentration
13	ADENOSINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		670 uM
14	URIDINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		670 uM
15	CYTIDINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		670 uM
16	GUANOSINE-5'-MONOPHOSPHATE	[U-100% 13C; U-100% 15N]		670 uM
17	D2O	natural abundance		100 %

Sample #7

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.6

#	Name	Isotope labeling	Type	Concentration
18	ADENOSINE-5'-MONOPHOSPHATE	natural abundance		300 uM
19	URIDINE-5'-MONOPHOSPHATE	natural abundance		300 uM
20	CYTIDINE-5'-MONOPHOSPHATE	natural abundance		300 uM
21	GUANOSINE-5'-MONOPHOSPHATE	natural abundance		300 uM
22	D2O	natural abundance		100 %

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Release date

2013-03-31

Citation

Structural principles of RNA catalysis in a 2'-5' lariat-forming ribozyme
Carlomagno, T., Amata, I., Codutti, L., Falb, M., Fohrer, J., Simon, B.
J. Am. Chem. Soc. (2013), 135, 4403-4411, PubMed 23472843 , DOI 10.1021/ja311868t , Abstract

Related entities 1. 2'-5' AG1 lariat forming ribozyme, : 1 entities Detail

Experiments performed 33 experiments Detail