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BMRB: 15857

2M24

NMR solution structure of the d3'-hairpin including EBS1 together with IBS1 of the group II intron Sc.ai5(gamma)

Authors

Kruschel, D., Sigel, R.K. O.

Assembly

29-MER

Entity

1. RNA (29-MER) (polymer, Thiol state: not present), 29 monomers, 9364.517 Da Detail

GGAGUAUGUA UUGGCACUGA GCAUACUCC

2. RNA (7-MER) (polymer, Thiol state: not present), 7 monomers, 2260.327 Da Detail

CAGUGUC

Total weight

11624.844 Da

Max. entity weight

9364.517 Da

Source organism

Saccharomyces cerevisiae

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 63.5 %, Completeness (bb): 52.5 % Detail

Polymer type: polyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	63.5 % (366 of 576)	87.9 % (276 of 314)	31.8 % (77 of 242)	65.0 % (13 of 20)
Suger, PO4	52.5 % (208 of 396)	83.3 % (180 of 216)	15.6 % (28 of 180)
Nucleobase	87.8 % (158 of 180)	98.0 % (96 of 98)	79.0 % (49 of 62)	65.0 % (13 of 20)
Aromatic	86.6 % (142 of 164)	97.6 % (80 of 82)	79.0 % (49 of 62)	65.0 % (13 of 20)

1. RNA (29-MER)

GGAGUAUGUA UUGGCACUGA GCAUACUCC

2. RNA (7-MER)

CAGUGUC

Show sample condition

Sample #1

Solvent system 100% D2O, Pressure 1 atm, Temperature 288 K

#	Name	Isotope labeling	Concentration
1	RNA (29-MER)	natural abundance	0.5-0.9 mM
2	RNA (7-MER)	natural abundance	0.5-0.9 mM
3	potassium chloride	natural abundance	110 mM
4	EDTA	natural abundance	10 uM
5	MgCl2	natural abundance	0-10 mM
6	D2O	[U-100% 2H]	100 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 288 K

#	Name	Isotope labeling	Concentration
7	RNA (29-MER)	natural abundance	0.5-0.9 mM
8	RNA (7-MER)	natural abundance	0.5-0.9 mM
9	potassium chloride	natural abundance	110 mM
10	EDTA	natural abundance	10 uM
11	MgCl2	natural abundance	0-8 mM
12	H2O	natural abundance	90 %
13	D2O	[U-100% 2H]	10 %

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 288 K

#	Name	Isotope labeling	Concentration
14	RNA (29-MER)	[selectively deuterated at 3',4',5',5'',5]	0.6 mM
15	RNA (7-MER)	natural abundance	0.6 mM
16	potassium chloride	natural abundance	110 mM
17	EDTA	natural abundance	10 uM
18	D2O	[U-100% 2H]	100 %

Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 288 K

#	Name	Isotope labeling	Concentration
19	RNA (29-MER)	[U-100% 13C; U-100% 15N]	0.5 mM
20	RNA (7-MER)	natural abundance	0.5 mM
21	potassium chloride	natural abundance	50 mM
22	EDTA	natural abundance	10 uM
23	H2O	natural abundance	90 %
24	D2O	[U-100% 2H]	10 %

Sample #5

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 288 K

#	Name	Isotope labeling	Concentration
25	RNA (29-MER)	[U-100% 13C; U-100% 15N]	0.5 mM
26	RNA (7-MER)	natural abundance	0.5 mM
27	potassium chloride	natural abundance	50 uM
28	EDTA	natural abundance	10 uM
29	Pf1 phage	natural abundance	25.6 mg/mL
30	H2O	natural abundance	90 %
31	D2O	[U-100% 2H]	10 %

Release date

2009-10-12

Citation

NMR structure of the 5' splice site in the group IIB intron Sc.ai5γ--conformational requirements for exon-intron recognition
Kruschel, D., Sigel, R.K. O.
RNA (2014), 20, 295-307, PubMed 24448450 , DOI 10.1261/rna.041137.113 , Abstract