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 5979

Title: A parallel stranded DNA duplex with an A-G mismatch base-pair

Authors: Venkitakrishnan, R.; Bhaumik, S.; Chary, K.; Govil, G.; Liu, K.; Howard, F.; Miles, T.

Citation: Venkitakrishnan, R.; Bhaumik, S.; Chary, K.; Govil, G.; Liu, K.; Howard, F.; Miles, T.. "A Parallel Stranded DNA Duplex with an A-G Mismatch Base-Pair: (Ccataatttacc:Cctatgaaatcc)"  Recent Trends in Biophys. Res. ., 1-. (2004).

Assembly members:
A-G mismatch base-pair parallel DNA duplex, strand A, polymer, 12 residues, Formula weight is not available
A-G mismatch base-pair parallel DNA duplex, strand B, polymer, 12 residues, Formula weight is not available

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):
A-G mismatch base-pair parallel DNA duplex, strand A: CCATAATTTACC
A-G mismatch base-pair parallel DNA duplex, strand B: CCTATGAAATCC

Data sets:
Data typeCount
1H chemical shifts229

Additional metadata:

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

Entity Assembly IDEntity NameEntity ID
1DNA strand A1
2DNA strand B2

Entities:

Entity 1, DNA strand A 12 residues - Formula weight is not available

1   DCDCDADTDADADTDTDTDA
2   DCDC

Entity 2, DNA strand B 12 residues - Formula weight is not available

1   DCDCDTDADTDGDADADADT
2   DCDC

Samples:

sample_1: A-G mismatch base-pair parallel DNA duplex, strand A 5 mM; A-G mismatch base-pair parallel DNA duplex, strand B 5 mM; sodium acetate buffer, [U-2H], 0.05 M; NaCl 0.1 M; D2O 100%

sample_2: A-G mismatch base-pair parallel DNA duplex, strand A 5 mM; A-G mismatch base-pair parallel DNA duplex, strand B 5 mM; sodium acetate buffer, [U-2H], 0.05 M; NaCl 0.1 M; D2O 10%; H2O 90%

sample_cond_1: ionic strength: 0.1 M; pH: 6.8; pressure: 1 atm; temperature: 298 K

sample_cond_2: ionic strength: 0.1 M; pH: 5.5; pressure: 1 atm; temperature: 278 K

Experiments:

NameSampleSample stateSample conditions
2D NOESYnot availablenot availablenot available
2D TOCSYnot availablenot availablenot available
jump return NOESYnot availablenot availablenot available
E-COSYnot availablenot availablenot available

Software:

DISCOVER v3.1 - refinement

InsightII vII - structure solution

NMR spectrometers:

  • Bruker AMX 500 MHz

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