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 4547

Title: Solution structure of a DNA.RNA hybrid containing an alpha-anomeric thymidine and polarity reversals: d(ATGG-3'-3'-(alpha-T)-5'-5'-GCTC).r(gagcaccau)   PubMed: 10569927

Authors: Germann, M.; Aramini, J.

Citation: Germann, M.; Aramini, J.. "Solution structure of a DNA.RNA hybrid containing an alpha-anomeric thymidine and polarity reversals: d(ATGG-3'-3'-(alpha-T)-5'-5'-GCTC).r(gagcaccau)"  Biochemistry 38, 15448-15458 (1999).

Assembly members:
5'-D(ATGG-3'-3'-(ALPHA-T)-5'-5'-GCTC)-3', polymer, 9 residues, Formula weight is not available
RNA, polymer, 9 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: .

Entity Sequences (FASTA):
5'-D(ATGG-3'-3'-(ALPHA-T)-5'-5'-GCTC)-3': ATGGXGCTC
RNA: GAGCACCAU

Data sets:
Data typeCount
1H chemical shifts166
31P chemical shifts16
coupling constants36

Additional metadata:

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

Entity Assembly IDEntity NameEntity ID
1DNA1
2RNA2

Entities:

Entity 1, DNA 9 residues - Formula weight is not available

1   DADTDGDGT3PDGDCDTDC

Entity 2, RNA 9 residues - Formula weight is not available

1   GAGCACCAU

Samples:

sample_1: 5'-D(ATGG-3'-3'-(ALPHA-T)-5'-5'-GCTC)-3' 0.89 mM; RNA 0.89 mM; NaCl 50 mM; NaPhosphate 10 mM; EDTA 0.5 mM; D2O%

sample_2: 5'-D(ATGG-3'-3'-(ALPHA-T)-5'-5'-GCTC)-3' 0.89 mM; RNA 0.89 mM; NaCl 50 mM; NaPhosphate 10 mM; EDTA 0.5 mM; D2O 10%; H2O 90%

sample_cond_1: pH: 6.6; temperature: 298 K

sample_cond_2: pH: 6.7; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D NOESYnot availablenot availablenot available
DQF-COSYnot availablenot availablenot available
31P-1H CORRELATION SPECTROSCOPYnot availablenot availablenot available

Software:

UXNMR v2.1 - data collection

MARDIGRAS v3.2 - iterative matrix relaxation

CORMA v5.2 - data analysis

SPARKY v3.33 - data analysis

AMBER v4.1 - refinement, structure solution

SPHINX-LINSHA vN/A - data analysis

CURVES v5.1 - data analysis

NMR spectrometers:

  • Bruker AMX 600 MHz

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