BMRB Entry 19702
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19702
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Title: Structure of the dimerization domain of the human polyoma, JC virus agnoprotein is an amphipathic alpha-helix. PubMed: 24672035
Deposition date: 2013-12-23 Original release date: 2014-04-11
Authors: Coric, Pascale; Saribas, Sami; Abou-Gharbia, Magid; Childers, Wayne; White, Martyn; Bouaziz, Serge; Safak, Mahmut
Citation: Coric, Pascale; Sami Saribas, A.; Abou-Gharbia, Magid; Childers, Wayne; White, Martyn; Bouaziz, Serge; Safak, Mahmut. "Nuclear magnetic resonance structure revealed that human polyoma JC virus agnoprotein contains an alpha-helix encompassing the Leu/Ile/Phe-rich domain." J. Virol. ., .-. (2014).
Assembly members:
AGNO, polymer, 36 residues, 4207.912 Da.
Natural source: Common Name: JCV Taxonomy ID: 10632 Superkingdom: Virus Kingdom: not available Genus/species: Polyomavirus JC polyomavirus
Experimental source: Production method: chemical synthesis
Entity Sequences (FASTA):
AGNO: TWSGTKKRAQRILIFLLEFL
LDFCTGEDSVDGKKRQ
- assigned_chemical_shifts
| Data type | Count |
| 1H chemical shifts | 256 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | AGNO protein | 1 |
Entities:
Entity 1, AGNO protein 36 residues - 4207.912 Da.
| 1 | THR | TRP | SER | GLY | THR | LYS | LYS | ARG | ALA | GLN | ||||
| 2 | ARG | ILE | LEU | ILE | PHE | LEU | LEU | GLU | PHE | LEU | ||||
| 3 | LEU | ASP | PHE | CYS | THR | GLY | GLU | ASP | SER | VAL | ||||
| 4 | ASP | GLY | LYS | LYS | ARG | GLN |
Samples:
sample_1: AGNO 0.5 mM; H2O 70 v/v; TFE, [U-100% 2H], 30 v/v
sample_conditions_1: ionic strength: 0 M; pH: 3.0; pressure: 1 atm; temperature: 293 K
sample_conditions_2: ionic strength: 0 M; pH: 3.0; pressure: 1 atm; temperature: 303 K
sample_conditions_3: ionic strength: 0 M; pH: 3.0; pressure: 1 atm; temperature: 313 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-1H NOESY | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-1H TOCSY | sample_1 | isotropic | sample_conditions_1 |
| 2D DQF-COSY | sample_1 | isotropic | sample_conditions_1 |
Software:
TOPSPIN v1.3, Bruker Biospin - collection
CCPNMR_Analysis v2.2.2, CCPN - chemical shift assignment, data analysis, peak picking
ARIA v2.3.1, Linge, O, . - geometry optimization, refinement, structure solution
NMR spectrometers:
- Bruker Avance 600 MHz
- Bruker Avance 600 MHz