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NMR solution structure of the d3'-stem closed by a GAAA tetraloop of the group II intron Sc.ai5(gamma)
Authors
Kruschel, D., Sigel, R.K. O.
Assembly
29-MER
Entity
1. 29-MER (polymer, Thiol state: not present), 22 monomers, 7145.245 Da Detail

GGAGUAUGUG AAAGCAUACU CC


Formula weight
7145.245 Da
Source organism
Saccharomyces cerevisiae
Exptl. method
solution NMR
Data set
assigned_chemical_shifts
Chem. Shift Complete
Sequence coverage: 100.0 %, Completeness: 66.7 %, Completeness (bb): 52.9 % Detail

Polymer type: polyribonucleotide

Total1H13C15N
All66.7 % (232 of 348)86.8 % (164 of 189)39.2 % (58 of 148)90.9 % (10 of 11)
Suger, PO452.9 % (128 of 242)81.1 % (107 of 132)19.1 % (21 of 110)
Nucleobase98.1 % (104 of 106)100.0 % (57 of 57)97.4 % (37 of 38)90.9 % (10 of 11)
Aromatic98.0 % (96 of 98)100.0 % (49 of 49)97.4 % (37 of 38)90.9 % (10 of 11)

1. RNA (22-MER)

GGAGUAUGUG AAAGCAUACU CC

Sample #1

Solvent system 100% D2O, Pressure 1 atm, Temperature 293 K


#NameIsotope labelingTypeConcentration
1RNA (22-MER)natural abundance0.9-1.3 mM
2potassium chloridenatural abundance10 mM
3EDTAnatural abundance10 uM
4D2O[U-100% 2H]100 %
Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 293 K


#NameIsotope labelingTypeConcentration
5RNA (22-MER)natural abundance0.9-1.3 mM
6potassium chloridenatural abundance10 mM
7EDTAnatural abundance10 uM
8H2Onatural abundance90 %
9D2O[U-100% 2H]10 %
Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 293 K


#NameIsotope labelingTypeConcentration
10RNA (22-MER)[U-100% 13C; U-100% 15N]1.0 mM
11potassium chloridenatural abundance10 mM
12EDTAnatural abundance10 uM
13D2O[U-100% 2H]100 %
Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 293 K


#NameIsotope labelingTypeConcentration
14RNA (22-MER)[U-100% 13C; U-100% 15N]1.0 mM
15potassium chloridenatural abundance10 mM
16EDTAnatural abundance10 uM
17H2Onatural abundance90 %
18D2O[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 ,
Related entities 1. 29-MER, : 1 entities Detail
Experiments performed 6 experiments Detail
NMR combined restraints 8 contents Detail
Keywords d3'-stem, GAAA tetraloop, group II intron, hairpin, NMR, ribozyme, RNA 22-mer, splicing