BMRBj - BMREntryMaster

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BMRB: 18503

2LU0

NMR solution structure of the kappa-zeta region of S.cerevisiae group II intron ai5(gamma)

Authors

Donghi, D., Pechlaner, M., Finazzo, C., Knobloch, B., Sigel, R.K.O.

Assembly

RNA (49-MER)

Entity

1. RNA (49-MER) (polymer, Thiol state: not present), 49 monomers, 15863.42 Da Detail

GGAAUAUGCU CAACGAAAGU GAAUCAGCUU CGGCUGAGAG CUAAGUUCC

Formula weight

15863.42 Da

Source organism

Saccharomyces cerevisiae

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete1

Sequence coverage: 100.0 %, Completeness: 75.0 %, Completeness (bb): 67.9 % Detail

Polymer type: polyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	75.0 % (583 of 777)	79.2 % (335 of 423)	70.9 % (234 of 330)	58.3 % (14 of 24)
Suger, PO4	67.9 % (366 of 539)	72.8 % (214 of 294)	62.0 % (152 of 245)
Nucleobase	91.2 % (217 of 238)	93.8 % (121 of 129)	96.5 % (82 of 85)	58.3 % (14 of 24)
Aromatic	91.3 % (199 of 218)	94.5 % (103 of 109)	96.5 % (82 of 85)	58.3 % (14 of 24)

1. RNA (49-MER)

GGAAUAUGCU CAACGAAAGU GAAUCAGCUU CGGCUGAGAG CUAAGUUCC

Show sample condition

Sample #1

Solvent system 100% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
1	RNA (49-MER)	natural abundance	0.3-1.0 mM
2	potassium chloride	natural abundance	60 mM
3	EDTA	natural abundance	10 uM
4	magnesium chloride	natural abundance	0-12 mM

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
5	RNA (49-MER)	[3',4',5',5 ,5-D5]	0.3-1.0 mM
6	potassium chloride	natural abundance	60 mM
7	EDTA	natural abundance	10 uM
8	magnesium chloride	natural abundance	0-12 mM

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
9	RNA (49-MER)	[100% 13C; 100% 15N]	0.3-1 mM
10	potassium chloride	natural abundance	60 mM
11	EDTA	natural abundance	10 uM
12	magnesium chloride	natural abundance	0-12 mM

Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
13	RNA (49-MER)	natural abundance	0.3-1.0 mM
14	potassium chloride	natural abundance	60 mM
15	EDTA	natural abundance	10 uM
16	magnesium chloride	natural abundance	0-12 mM

Sample #5

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
17	RNA (49-MER)	[U-100% 13C; U-100% 15N]	0.3-1.0 mM
18	potassium chloride	natural abundance	60 mM
19	EDTA	natural abundance	10 uM
20	magnesium chloride	natural abundance	0-12 mM

Chem. Shift Complete2

Sequence coverage: 100.0 %, Completeness: 56.7 %, Completeness (bb): 44.6 % Detail

Polymer type: polyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	56.7 % (881 of 1554)	63.4 % (536 of 846)	47.3 % (312 of 660)	68.8 % (33 of 48)
Suger, PO4	44.6 % (481 of 1078)	52.9 % (311 of 588)	34.7 % (170 of 490)
Nucleobase	84.0 % (400 of 476)	87.2 % (225 of 258)	83.5 % (142 of 170)	68.8 % (33 of 48)
Aromatic	83.0 % (362 of 436)	85.8 % (187 of 218)	83.5 % (142 of 170)	68.8 % (33 of 48)

1. RNA (49-MER)

GGAAUAUGCU CAACGAAAGU GAAUCAGCUU CGGCUGAGAG CUAAGUUCC

Show sample condition

Sample #1

Solvent system 100% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
1	RNA (49-MER)	natural abundance	0.3-1.0 mM
2	potassium chloride	natural abundance	60 mM
3	EDTA	natural abundance	10 uM
4	magnesium chloride	natural abundance	0-12 mM

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
5	RNA (49-MER)	[3',4',5',5 ,5-D5]	0.3-1.0 mM
6	potassium chloride	natural abundance	60 mM
7	EDTA	natural abundance	10 uM
8	magnesium chloride	natural abundance	0-12 mM

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
9	RNA (49-MER)	[100% 13C; 100% 15N]	0.3-1 mM
10	potassium chloride	natural abundance	60 mM
11	EDTA	natural abundance	10 uM
12	magnesium chloride	natural abundance	0-12 mM

Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
13	RNA (49-MER)	natural abundance	0.3-1.0 mM
14	potassium chloride	natural abundance	60 mM
15	EDTA	natural abundance	10 uM
16	magnesium chloride	natural abundance	0-12 mM

Sample #5

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 300 K

#	Name	Isotope labeling	Concentration
17	RNA (49-MER)	[U-100% 13C; U-100% 15N]	0.3-1.0 mM
18	potassium chloride	natural abundance	60 mM
19	EDTA	natural abundance	10 uM
20	magnesium chloride	natural abundance	0-12 mM

Release date

2013-02-13

Citation

The structural stabilization of the κ three-way junction by Mg(II) represents the first step in the folding of a group II intron
Donghi, D., Pechlaner, M., Finazzo, C., Knobloch, B., Sigel, R.K.O.
Nucleic Acids Res. (2013), 41, 2489-2504, PubMed 23275550 , DOI 10.1093/nar/gks1179 , Abstract