Research workbench
Structure of tomato bushy stunt virus. V. coat protein sequence determination and its structural implications
Analyse Structure of tomato bushy stunt virus. V. coat protein sequence determination… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2TBV
- Type
- protein
- Length
- 893 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tomato bushy stunt virus
- UniProt
- P11795
- Ligands
- CA
- Pockets
- 9 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 2% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Tomato bushy stunt virus | protein | 286 | 2% helix, 40% strand | P11795 |
| C | Tomato bushy stunt virus | protein | 321 | 2% helix, 36% strand | P11795 |
Ligands and binding sites
- CA · Calcium ion · metal · 6 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 410 | 0.72 | 0.82 | 39 | empty |
| 2 | 212 | 0.67 | 0.85 | 40 | empty |
| 3 | 235 | 0.66 | 0.84 | 38 | empty |
| 4 | 330 | 0.59 | 0.77 | 45 | CA |
| 5 | 225 | 0.59 | 0.80 | 31 | empty |
Interfaces
3 interfaces between chains.
- A–B · 717 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 709 Ų buried · 20 hydrogen bonds · protein-protein
- B–C · 634 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 2TBV · Structure of tomato bushy stunt virus. V. coat protein sequence determination and its… · the same entry in another collection · chain B against B, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P11795
- Elsewhere: RCSB PDB 2TBV · PDBe 2TBV · UniProt P11795
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