BMRB Entry 34723

Name: Structure of a hybrid-type G-quadruplex with a snapback loop and an all-syn G-column (hybrid-1R)
Published: 2022-06-09

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PDB ID: 7zeo
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR34723
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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:

Structure of a hybrid-type G-quadruplex with a snapback loop and an all-syn G-column (hybrid-1R)

Deposition date:

2022-03-31

Original release date:

2022-06-09

Authors:

Jana, J.; Vianney, Y.; Schroeder, N.; Weisz, K.

Citation:

Citation: Jana, J.; Vianney, Y.; Schroeder, N.; Weisz, K.. "Guiding the folding of G-quadruplexes through loop residue interactions" Nucleic Acid Res. 50, 7161-7175 (2022).
PubMed: 35758626

Assembly members:

Assembly members:
entity_1, polymer, 20 residues, 6325.977 Da.

Natural source:

Natural source: Common Name: not available Taxonomy ID: 32630 Superkingdom: not available Kingdom: not available Genus/species: synthetic construct

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: XXCTAGGGTGGGTGGGTCAG

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	21
1H chemical shifts	127

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 20 residues - 6325.977 Da.

1		GNG	BGM	DC	DT	DA	DG	DG	DG	DT	DG
2		DG	DG	DT	DG	DG	DG	DT	DC	DA	DG

Samples:

sample_1: DNA 0.3 mM

sample_conditions_1: ionic strength: 10 mM; pH: 7.0; pressure: 1 atm; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-13C HSQC aromatic	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-1H COSY	sample_1	isotropic	sample_conditions_1

Software:

Amber v16, Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement

X-PLOR NIH v3.0.3, Schwieters, Kuszewski, Tjandra and Clore - structure calculation

CcpNmr Analysis v2.4.2, CCPN - chemical shift assignment, data analysis, peak picking

TopSpin v4.0.7, Bruker Biospin - processing

NMR spectrometers:

Bruker AVANCE NEO 600 MHz