BMRB Entry 30485
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR30485
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Title: NMR structure for Sp1 transcription factor duplex 5'-d(TGGGCGGGG)
Deposition date: 2018-06-29 Original release date: 2019-06-26
Authors: Davis, E.; Hennig, M.; Arya, D.
Citation: Davis, E.; Hennig, M.; Arya, D.. "An NMR Structure Determination and Analysis of Four Sp1 Consensus Sequences" . ., .-..
Assembly members:
entity_1, polymer, 9 residues, 2852.858 Da.
entity_2, polymer, 9 residues, 2621.728 Da.
Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens
Experimental source: Production method: chemical synthesis
Entity Sequences (FASTA):
entity_1: TGGGCGGGG
entity_2: CCCCGCCCA
- assigned_chemical_shifts
- spectral_peak_list
| Data type | Count |
| 1H chemical shifts | 133 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | entity_1 | 1 |
| 2 | entity_2 | 2 |
Entities:
Entity 1, entity_1 9 residues - 2852.858 Da.
| 1 | DT | DG | DG | DG | DC | DG | DG | DG | DG |
Entity 2, entity_2 9 residues - 2621.728 Da.
| 1 | DC | DC | DC | DC | DG | DC | DC | DC | DA |
Samples:
sample_1: DNA 1.0 mM; DNA 1.0 mM; sodium chloride 25 mM; Na Phosphate 5 mM; EDTA 0.5 mM
sample_2: DNA 900 uM; DNA 900 uM; sodium chloride 25 mM; Na Phosphate 5 mM; EDTA 0.5 mM
sample_conditions_1: ionic strength: 30 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D DQF-COSY | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-1H TOCSY | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-13C HSQC | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-1H NOESY | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-1H NOESY | sample_2 | isotropic | sample_conditions_1 |
| 2D ECOSY | sample_1 | isotropic | sample_conditions_1 |
Software:
CYANA v3.97, Guntert, Mumenthaler and Wuthrich - structure calculation
AMBER v14.0, Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman - refinement
SPARKY, Goddard - chemical shift assignment
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
3DNA, Lu - data analysis
TOPSPIN, Bruker Biospin - collection
NMR spectrometers:
- Bruker Avance 800 MHz
- Bruker AvanceIII 850 MHz