BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 15860

Title: NMR solution structure of modified DNA containing imidazole nucleosides at acidic, neutral and basic pH

Authors: Johannsen, Silke; Boehme, Dominik; Duepre, Nicole; Mueller, Jens; Sigel, Roland

Citation: Johannsen, Silke; Boehme, Dominik; Duepre, Nicole; Mueller, Jens; Sigel, Roland. "Solution structure at different pHs of a DNA hairpin containing artificial nucleotides"  Not known ., .-..

Assembly members:
DNA_17-mer, polymer, 17 residues, 5021.597 Da.

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

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):
DNA_17-mer: TTAATTTXXXAAATTAA

Data typeCount
1H chemical shifts502

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1DNA_17-mer1

Entities:

Entity 1, DNA_17-mer 17 residues - 5021.597 Da.

1   DTDTDADADTDTDTD33D33D33
2   DADADADTDTDADA

Samples:

sample_1: DNA 17-mer 0.2-0.8 mM; sodium perchlorate 120 mM

sample_2: DNA 17-mer 0.2-0.8 mM; sodium perchlorate 120 mM

sample_conditions_1: ionic strength: 0.12 M; pD: 4.7; pressure: 1 atm; temperature: 298 K

sample_conditions_2: ionic strength: 120 mM; pH: 4.7; pressure: 1 atm; temperature: 278 K

sample_conditions_3: ionic strength: 0.12 M; pD: 7.2; pressure: 1 atm; temperature: 298 K

sample_conditions_4: ionic strength: 120 mM; pH: 7.2; pressure: 1 atm; temperature: 278 K

sample_conditions_5: ionic strength: 0.12 M; pD: 10.2; pressure: 1 atm; temperature: 298 K

sample_conditions_6: ionic strength: 120 mM; pH: 10.2; pressure: 1 atm; temperature: 278 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-1H TOCSYsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_2
2D 1H-1H NOESYsample_1isotropicsample_conditions_3
2D 1H-1H TOCSYsample_1isotropicsample_conditions_3
2D 1H-13C HSQCsample_1isotropicsample_conditions_3
2D 1H-1H NOESYsample_2isotropicsample_conditions_4
2D 1H-1H NOESYsample_1isotropicsample_conditions_5
2D 1H-1H TOCSYsample_1isotropicsample_conditions_5
2D 1H-13C HSQCsample_1isotropicsample_conditions_5
2D 1H-1H NOESYsample_2isotropicsample_conditions_6

Software:

TOPSPIN v1.3, 2.0, 2.1, Bruker Biospin - processing

SPARKY v3.1, Goddard - chemical shift assignment, data analysis, peak picking

DYANA v1.5, Guntert, Braun and Wuthrich - structure solution

X-PLOR NIH v2.15, Schwieters, Kuszewski, Tjandra and Clore - refinement

NMR spectrometers:

  • Bruker Avance 700 MHz

Related Database Links: