BMRB Entry 19728
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR19728
MolProbity Validation Chart
NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
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Citation: Kocman, Vojc; Plavec, Janez. "A tetrahelical DNA fold adopted by tandem repeats of alternating GGG and GCG tracts" Nat. Commun. 5, 5831-5831 (2014).
PubMed: 25500730
Assembly members:
d(GGGAGCG)n, polymer, 15 residues, 4765.122 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):
d(GGGAGCG)n: GGGAGCGAGGGAGCG
- assigned_chemical_shifts
| Data type | Count |
| 1H chemical shifts | 112 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | DNA (5'-D(*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*G)-3')_1 | 1 |
| 2 | DNA (5'-D(*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*G)-3')_2 | 1 |
Entities:
Entity 1, DNA (5'-D(*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*G)-3')_1 15 residues - 4765.122 Da.
| 1 | DG | DG | DG | DA | DG | DC | DG | DA | DG | DG | ||||
| 2 | DG | DA | DG | DC | DG |
Samples:
VK1: DNA (5'-D(*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*G)-3') 2.8 mM; DNA (5'-D(*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*G)-3'), partial residue specific 15N, 1 mM; DNA (5'-D(*GP*GP*GP*AP*GP*CP*GP*AP*GP*GP*GP*AP*GP*CP*G)-3'), residue specific 2H, 1 mM; H2O 90%; D2O 10%; LiCl 100 mM
VK1_sample_conditions: ionic strength: 100 mM; pH: 6; pressure: 1 atm; temperature: 273 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-1H NOESY | VK1 | isotropic | VK1_sample_conditions |
| 2D DQF-COSY | VK1 | isotropic | VK1_sample_conditions |
| 2D 1H-1H TOCSY | VK1 | isotropic | VK1_sample_conditions |
| 2D 1H-31P COSY | VK1 | isotropic | VK1_sample_conditions |
| 2D 1H-15N HSQC | VK1 | isotropic | VK1_sample_conditions |
Software:
AMBER v11, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman - structure solution
NMR spectrometers:
- Agilent VNMRS 800 MHz
- Agilent VNMRS 600 MHz
- Agilent DD2 600 MHz