BMRB Entry 34676

Name: Solution structure of an intramolecular RNA G-quadruplex formed by the 6A8A17U mutant from a 22mer guanine-rich sequence within the 5&#039;UTR of BCL-2 proto-oncogene
Published: 2022-11-08

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PDB ID: 7q6l
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR34676
MolProbity Validation Chart

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution structure of an intramolecular RNA G-quadruplex formed by the 6A8A17U mutant from a 22mer guanine-rich sequence within the 5'UTR of BCL-2 proto-oncogene

Deposition date:

2021-11-08

Original release date:

2022-11-08

Authors:

Wang, Z.; Jurt, S.; Dominguez-Martin, A.; Johannsen, S.; Sigel, R.

Citation:

Citation: Wang, Z.; Jurt, S.; Dominguez-Martin, A.; Johannsen, S.; Sigel, R.. "Solution structure of an intramolecular RNA G-quadruplex formed by the 6A8A17U mutant from a 22mer guanine-rich sequence within the 5'UTR of BCL-2 proto-oncogene" .

Assembly members:

Assembly members:
entity_1, polymer, 22 residues, 7225.339 Da.

Natural source:

Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GGGCCAUAGGGUGGGAUCUG GG

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1
spectral_peak_list
- spectral_peak_list_1

Data type	Count
13C chemical shifts	182
15N chemical shifts	12
1H chemical shifts	184

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	unit_1	1

Entities:

Entity 1, unit_1 22 residues - 7225.339 Da.

1

G

C

A

U

A

G

2

G

U

G

A

U

C

U

G

3

G

Samples:

sample_1: BCL-2 6A8A17U 1.3 mM

sample_2: BCL-2 6A8A17U 1.3 mM

sample_3: BCL-2 6A8A17U, [G 15N-labeled], 0.5 mM

sample_4: BCL-2 6A8A17U, [A 13C, 15N-labeled], 0.3 mM

sample_5: BCL-2 6A8A17U, [C 13C, 15N-labeled], 0.3 mM

sample_6: BCL-2 6A8A17U, [G 13C-labeled], 0.5 mM

sample_7: BCL-2 6A8A17U, [U 13C, 15N-labeled], 0.3 mM

sample_conditions_1: ionic strength: 2 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

sample_conditions_2: ionic strength: 2 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

sample_conditions_3: ionic strength: 2 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

sample_conditions_4: ionic strength: 2 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

sample_conditions_5: ionic strength: 2 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

sample_conditions_6: ionic strength: 2 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

sample_conditions_7: ionic strength: 2 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_2
2D 1H-1H TOCSY	sample_2	isotropic	sample_conditions_2
2D 1H-13C HSQC	sample_2	isotropic	sample_conditions_2
JR-HMBC	sample_1	isotropic	sample_conditions_1
H8N2 HNN-COSY	sample_3	isotropic	sample_conditions_3
H1N2 HNN-COSY	sample_3	isotropic	sample_conditions_3
H1pC6/8 HMBC	sample_2	isotropic	sample_conditions_2
constant-time 1H-13C HSQC	sample_4	isotropic	sample_conditions_4
constant-time 1H-13C HSQC	sample_5	isotropic	sample_conditions_5
constant-time 1H-13C HSQC	sample_6	isotropic	sample_conditions_6
constant-time 1H-13C HSQC	sample_7	isotropic	sample_conditions_7

Software:

TopSpin v4.0.6, Bruker Biospin - collection

NMRFAM-SPARKY v1.414, Lee W, Tonelli M, Markley JL - chemical shift assignment, peak picking

X-PLOR NIH v3.0, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure calculation

NMR spectrometers:

Bruker AVANCE 600 MHz
Bruker AVANCE 700 MHz