BMRB Entry 30552

Name: MYC Promoter G-Quadruplex with 1:6:1 loop length
Published: 2019-02-08

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PDB ID: 6neb
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR30552
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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

MYC Promoter G-Quadruplex with 1:6:1 loop length

Deposition date:

2018-12-17

Original release date:

2019-02-08

Authors:

Dickerhoff, J.; Onel, B.; Chen, L.; Chen, Y.; Yang, D.

Citation:

Citation: Dickerhoff, J.; Onel, B.; Chen, L.; Chen, Y.; Yang, D.. "Solution Structure of a MYC Promoter G-Quadruplex with 1:6:1 Loop Length" Acs Omega 4, 2533-2539 (2019).

Assembly members:

Assembly members:
entity_1, polymer, 27 residues, 8563.501 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: TTGGGGAGGGTTTTAAGGGT GGGGAAT

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	32
1H chemical shifts	260

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	entity_1	1

Entities:

Entity 1, entity_1 27 residues - 8563.501 Da.

1

DT

DG

DA

DG

2

DT

DA

DG

DT

3

DG

DA

DT

Samples:

sample_1: DNA (27-MER) 1.5 mM; potassium phosphate 25 mM; potassium chloride 75 mM

sample_conditions_1: ionic strength: 100 mM; pH: 7; pressure: 1 atm; temperature: 298 K

sample_conditions_2: ionic strength: 100 mM; pH: 7; pressure: 1 atm; temperature: 278 K

sample_conditions_3: ionic strength: 100 mM; pH: 7; pressure: 1 atm; temperature: 313 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_2
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_3
2D 1H-13C HSQC aromatic	sample_1	isotropic	sample_conditions_1
2D DQF-COSY	sample_1	isotropic	sample_conditions_1

Software:

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

X-PLOR NIH v2.48, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure calculation

CcpNMR, CCPN - chemical shift assignment, peak picking

TOPSPIN v3.5, Bruker Biospin - processing

NMR spectrometers:

Bruker AvanceIII 800 MHz