BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 15360

Title: Solution Structures of a DNA Dodecamer Duplex   PubMed: 17497831

Authors: Bhattacharyya, D.; Wu, Y.; Chaney, S.; Campbell, S.

Citation: Wu, Y.; Bhattacharyya, D.; King, C.; Baskerville-Abraham, I.; Huh, S.; Boysen, G.; Swenberg, J.; Temple, B.; Campbell, S.; Chaney, S.. "Solution structures of a DNA dodecamer duplex with and without a cisplatin 1,2-d(GG) intrastrand cross-link: comparison with the same DNA duplex containing an oxaliplatin 1,2-d(GG) intrastrand cross-link"  Biochemistry 46, 6477-6487 (2007).

Assembly members:
CCTCAGGCCTCC, polymer, 12 residues, Formula weight is not available
GGAGGCCTGAGG, polymer, 12 residues, Formula weight is not available

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
CCTCAGGCCTCC: CCTCAGGCCTCC
GGAGGCCTGAGG: GGAGGCCTGAGG

Data sets:
Data typeCount
1H chemical shifts266
31P chemical shifts22

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1DNA 12mer, chain 11
2DNA 12mer, chain 22

Entities:

Entity 1, DNA 12mer, chain 1 12 residues - Formula weight is not available

1   DCDCDTDCDADGDGDCDCDT
2   DCDC

Entity 2, DNA 12mer, chain 2 12 residues - Formula weight is not available

1   DGDGDADGDGDCDCDTDGDA
2   DGDG

Samples:

sample_1: CCTCAGGCCTCC 1.0 mM; GGAGGCCTGAGG 1.0 mM; NaCl 100 mM; phosphate buffer 5 mM

sample_2: CCTCAGGCCTCC 1.0 mM; GGAGGCCTGAGG 1.0 mM; NaCl 100 mM; phosphate buffer 5 mM

sample_conditions_1: ionic strength: 105 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D NOESYsample_1isotropicsample_conditions_1
2D TOCSYsample_1isotropicsample_conditions_1
DQF-COSYsample_1isotropicsample_conditions_1
2D NOESYsample_1isotropicsample_conditions_1
2D 1H 31P HETCORsample_1isotropicsample_conditions_1

Software:

CNS v1.1, Brunger, Adams, Clore, Gros, Nilges and Read - structure solution

NMRPipe v1.1, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

NMR spectrometers:

  • Varian INOVA 600 MHz
  • Varian INOVA 800 MHz

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