BMRB Entry 50244

Name: [r(UGGUGG)(2&#039;OMeU)]4 G-quadruplex
Published: 2020-05-20

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR50244

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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:

[r(UGGUGG)(2'OMeU)]4 G-quadruplex

Deposition date:

2020-04-24

Original release date:

2020-05-20

Authors:

Andralojc, Witold

Citation:

Citation: Andralojc, Witold; Pasternak, Karol; Sarzynska, Joanna; Zielinska, Karolina; Kierzek, Ryszard; Gdaniec, Zofia. "The origin of the high stability of 3'-terminal uridine tetrads: contributions of hydrogen bonding, stacking interactions, and steric factors evaluated using modified oligonucleotide analogs" RNA 26, 2000-2016 (2020).
PubMed: 32967936

Assembly members:

Assembly members:
entity_1, polymer, 7 residues, Formula weight is not available

Natural source:

Natural source: Common Name: not available Taxonomy ID: not available Superkingdom: not available Kingdom: not available Genus/species: not available not available

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: UGGUGGX

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
1H chemical shifts	50
31P chemical shifts	7

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	[r(UGGUGG)(2'OMeU)]4 G-quadruplex	1

Entities:

Entity 1, [r(UGGUGG)(2'OMeU)]4 G-quadruplex 7 residues - Formula weight is not available

The X residue is 2'-O-methyl-uridine; the protons belonging to the 2'-O-methyl group are marked as H2'OMe in the uploaded CS file.

1

U

G

U

G

X

Samples:

sample_1: [r(UGGUGG)(2'OMeU)]4 G-quadruplex 1 mM; sodium phosphate 10 mM; sodium chloride 150 mM

sample_conditions_1: ionic strength: 150 mM; pH: 6.8; 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-13C HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-31H COSY	sample_1	isotropic	sample_conditions_1
2D DQF-COSY	sample_1	isotropic	sample_conditions_1

Software:

TOPSPIN - collection

SPARKY - chemical shift assignment

NMR spectrometers:

Bruker Avance III 700 MHz