BMRB Entry 19572

Title:
Solution NMR structure of quadruplex d(TGGGTTTGGGTTGGGTTTGGG) in sodium conditions.
Deposition date:
2013-10-23
Original release date:
2014-10-27
Authors:
Karsisiotis, Andreas Ioannis; Dillon, Paul; Webba da Silva, Mateus
Citation:

Citation: Karsisiotis, Andreas Ioannis; Dillon, Paul; Webba da Silva, Mateus. "In preparation"  .

Assembly members:

Assembly members:
DNA, polymer, 21 residues, 6643.305 Da.

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):
DNA: TGGGTTTGGGTTGGGTTTGG G

Data sets:
Data typeCount
1H chemical shifts180

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1DNA (5'-D(*TP*GP*GP*GP*TP*TP*TP*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*GP*GP*G)-3')1

Entities:

Entity 1, DNA (5'-D(*TP*GP*GP*GP*TP*TP*TP*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*GP*GP*G)-3') 21 residues - 6643.305 Da.

1   DTDGDGDGDTDTDTDGDGDG
2   DTDTDGDGDGDTDTDTDGDG
3   DG

Samples:

Exchangeable_protons_(278K): DNA (5'-D(*TP*GP*GP*GP*TP*TP*TP*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*GP*GP*G)-3')5 – 6 mM; sodium phosphate 20 mM; sodium chloride 70 mM; H2O 93%; D2O, [U-100% 2H], 7%

Non_exchangeable_protons_(293K): DNA (5'-D(*TP*GP*GP*GP*TP*TP*TP*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*GP*GP*G)-3')5 – 6 mM; sodium phosphate 20 mM; sodium chloride 70 mM; D2O, [U-100% 2H], 100%

Exchangeable_protons_(278K)_conditions: ionic strength: 95 mM; pH: 6.8; pressure: 1 atm; temperature: 278 K

Non_exchangeable_protons_(293K)_conditions: ionic strength: 95 mM; pH: 6.8; pressure: 1 atm; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H TOCSYNon_exchangeable_protons_(293K)isotropicNon_exchangeable_protons_(293K)_conditions
2D 1H-1H DQF-COSYNon_exchangeable_protons_(293K)isotropicNon_exchangeable_protons_(293K)_conditions
2D 1H-1H NOESYNon_exchangeable_protons_(293K)isotropicNon_exchangeable_protons_(293K)_conditions
2D 1H-1H NOESYExchangeable_protons_(278K)isotropicExchangeable_protons_(278K)_conditions
2D 1H-31P HSQCNon_exchangeable_protons_(293K)isotropicNon_exchangeable_protons_(293K)_conditions
2D 1H-13C HMBC (H1-H8 long range correlation)Exchangeable_protons_(278K)isotropicExchangeable_protons_(278K)_conditions

Software:

VNMRJ, Varian - collection

FELIX, Accelrys Software Inc. - chemical shift assignment, data analysis, processing

SPARKY, Goddard - chemical shift assignment, data analysis

Molmol, Koradi, Billeter and Wuthrich - data analysis

X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure solution

NMR spectrometers:

  • Varian VNMRS 500 500 MHz