BMRB: 34051

Structure of DNA AGCGA-quadruplex adopted by 15-mer d(GCGAGGGAGCGAGGG), VK34, oligonucleotide found in regulatory region of the PLEKHG3 human gene

Authors

Kocman, V., Plavec, J.

Assembly

DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3')

Entity

1. DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3') (polymer, Thiol state: not present), 15 monomers, 4828.056 × 2 Da Detail

GCGAGGGAGC GAGGG

Total weight

9656.112 Da

Max. entity weight

4828.056 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 89.9 %, Completeness (bb): 92.4 % Detail

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Polymer type: polydeoxyribonucleotide

	Total	1H
All	89.9 % (125 of 139)	89.9 % (125 of 139)
Suger, PO4	92.4 % (97 of 105)	92.4 % (97 of 105)
Nucleobase	82.4 % (28 of 34)	82.4 % (28 of 34)
Aromatic	80.0 % (24 of 30)	80.0 % (24 of 30)

1. entity 1

GCGAGGGAGC GAGGG

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 273 K, pH 6.25 (±0.25), Details 0.8 mM DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3'), 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3')	natural abundance		0.8 mM

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 273 K, pH 6.25 (±0.25), Details 0.8 mM [10 % 15N] residue specific Gua DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3'), 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
2	DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3')	[10 % 15N] residue specific Gua		0.8 mM

Sample #3

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 273 K, pH 6.25 (±0.25), Details 0.8 mM [10% 13C] residues specific adenine DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3'), 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3')	[10% 13C] residues specific adenine		0.8 mM

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Release date

2016-10-09

Citation

Tetrahelical structural family adopted by AGCGA-rich regulatory DNA regions
Kocman, V., Plavec, J.
Nat. Commun. (2017), 8, 15355-15355, PubMed 28513602 , DOI 10.1038/ncomms15355 , Abstract

Entries sharing articles BMRB: 2 entries Detail

Related entities 1. DNA (5'-D(*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*G)-3'), : 29 entities Detail

Experiments performed 4 experiments Detail