Download MendeleyCrystal structure of tomato spotted wilt virus G N reveals a dimer complex formation and evolutionary link to animal-infecting viruses
Bahat, Y., Alter, J., Dessau, M.(2020) Proc Natl Acad Sci U S A 117: 26237
6YA0
Crystal structure of TSWV glycoprotein N ectodomain (Trypsin treated)
- PDB DOI: 10.2210/pdb6YA0/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Tomato spotted wilt orthotospovirus
- Expression System: Trichoplusia ni
- Mutation(s): No
- Deposited: 2020-03-11 Released: 2020-09-30
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.86 Å
- R-Value Free: 0.261
- R-Value Work: 0.217
- R-Value Observed: 0.222
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Glycoprotein | A, B, C | 288 | Tomato spotted wilt orthotospovirus | Mutation(s): 0 Gene Names: Gn, Gc, GP |  |
UniProt | |||||
Find proteins for O55647 (Tomato spotted wilt virus) Explore O55647 Go to UniProtKB: O55647 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O55647 | ||||
Protein Feature ViewExpand | |||||
| |||||
Oligosaccharides
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Chain Length | 2D Diagram | Glycosylation | 3D Interactions |
| beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | D | 2 |  | N-Glycosylation | Oligosaccharides Interaction |
Glycosylation Resources | |||||
GlyTouCan: G90333CG GlyCosmos: G90333CG GlyGen: G90333CG | |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG Query on NAG | E [auth A], F [auth A], H [auth B], I [auth B], J [auth C] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | Ligand Interaction | |
| ACT Query on ACT | G [auth B] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |  | Ligand Interaction | |
| NH4 Query on NH4 | K [auth C] | AMMONIUM ION H4 N QGZKDVFQNNGYKY-UHFFFAOYSA-O |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.86 Å
- R-Value Free: 0.261
- R-Value Work: 0.217
- R-Value Observed: 0.222
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 68.82 | α = 90 |
| b = 74.85 | β = 103.27 |
| c = 81.28 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| PHENIX | phasing |
Entry History
Deposition Data
- Deposited Date: 2020-03-11
- Released Date: 2020-09-30 Deposition Author(s): Dessau, M., Bahat, Y.
Revision History (Full details and data files)
- Version 1.0: 2020-09-30
Type: Initial release - Version 1.1: 2021-04-14
Changes: Database references
