BMRB Entry 17397

Name: Solution structure of all parallel G-quadruplex formed by the oncogene RET promoter sequence
Published: 2011-05-12

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PDB ID: 2l88
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17397
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution structure of all parallel G-quadruplex formed by the oncogene RET promoter sequence

Deposition date:

2011-01-06

Original release date:

2011-05-12

Authors:

Tong, Xiaotian; Cao, Chunyang

Citation:

Citation: Tong, Xiaotian; Lan, Wenxian; Zhang, Xu; Wu, Houming; Liu, Maili; Cao, Chunyang. "Solution structure of all parallel G-quadruplex formed by the oncogene RET promoter sequence." Nucleic Acids Res. 39, 6753-6763 (2011).
PubMed: 21540209

Assembly members:

Assembly members:
RET_oncogene, polymer, 20 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 Host organism: Escherichia coli Vector: not applicable

Entity Sequences (FASTA):

Entity Sequences (FASTA):
RET_oncogene: GGGGCGGGGCGGGGCGGGGT

Data sets:

assigned_chemical_shifts
- RET_chemical_shifts

Data type	Count
1H chemical shifts	209

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RET_oncogene	1

Entities:

Entity 1, RET_oncogene 20 residues - Formula weight is not available

1		DG	DG	DG	DG	DC	DG	DG	DG	DG	DC
2		DG	DG	DG	DG	DC	DG	DG	DG	DG	DT

Samples:

sample_1: RET_oncogene0.2 – 3 mM; potassium phosphate0.2 – 0.3 mM; H2O 90%; D2O 10%

sample_2: RET_oncogene0.2 – 3 mM; potassium phosphate0.2 – 0.3 mM; D2O 100%

sample_conditions_1: ionic strength: 0.1 M; 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-1H TOCSY	sample_2	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_2	isotropic	sample_conditions_1
2D DQF-COSY	sample_2	isotropic	sample_conditions_1

Software:

X-PLOR NIH v2.17, Schwieters, Kuszewski, Tjandra and Clore - structure solution

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

SPARKY, Goddard - data analysis

NMR spectrometers:

Varian INOVA 600 MHz