BMRB Entry 51036
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51036
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Title: loxP spacer 16-mer PubMed: 34985267
Deposition date: 2021-07-28 Original release date: 2022-01-22
Authors: Wagner, Nicole; Foster, Mark
Citation: Wagner, Nicole; Foster, Mark. "Nearest-neighbor effects modulate loxP spacer DNA chemical shifts and guide oligonucleotide design for nuclear magnetic resonance studies" Biochemistry 61, 67-76 (2022).
Assembly members:
entity_1, polymer, 16 residues, Formula weight is not available
entity_2, polymer, 16 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
Experimental source: Production method: obtained from a vendor
Entity Sequences (FASTA):
entity_1: CGTAATGTATGCTACC
entity_2: GGTAGCATACATTACG
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 63 |
| 1H chemical shifts | 195 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | A | 1 |
| 2 | B | 2 |
Entities:
Entity 1, A 16 residues - Formula weight is not available
| 1 | DC | DG | DT | DA | DA | DT | DG | DT | DA | DT | ||||
| 2 | DG | DC | DT | DA | DC | DC |
Entity 2, B 16 residues - Formula weight is not available
| 1 | DG | DG | DT | DA | DG | DC | DA | DT | DA | DC | ||||
| 2 | DA | DT | DT | DA | DC | DG |
Samples:
sample_1: loxP spacer 16-mer 1.37 mM; sodium chloride 100 mM; TRIS, [U-2H], 10 mM; DSS 50 uM; sodium azide 0.02%; D2O 10%
sample_conditions_1: ionic strength: 0.1 M; pH: 7.0; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 1D 1H | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-1H TOCSY | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-1H NOESY | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-13C HSQC aromatic | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-13C HSQC | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-13C HSQC anomeric | sample_1 | isotropic | sample_conditions_1 |
Software:
NMRFx Processor - processing
TOPSPIN - collection
NMRViewJ - chemical shift assignment, data analysis, peak picking
NMR spectrometers:
- Bruker AVANCE III 600 MHz
- Bruker AVANCE III 850 MHz