Research workbench
Sindbis virion
Analyse Sindbis virion in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3J0F
- Type
- protein
- Length
- 4,064 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein; E1 envelope glycoprotein; E2 envelope glycoprotein
- EC
- 3.4.21.90
- UniProt
- P03316
- Pockets
- 6 · best druggability 0.40
Structure
electron microscopy · 3 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Capsid protein (EC 3.4.21.90) | protein | 159 | 0% helix, 0% strand | P03316 |
| E, F, G, H | E1 envelope glycoprotein | protein | 439 | 0% helix, 0% strand | P03316 |
| I, J, K, L | E2 envelope glycoprotein | protein | 418 | 0% helix, 0% strand | P03316 |
Pockets
6 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 121 | 0.40 | 0.73 | 38 | empty |
| 2 | 92 | 0.36 | 0.73 | 25 | empty |
| 3 | 79 | 0.34 | 0.73 | 21 | empty |
| 4 | 66 | 0.32 | 0.73 | 23 | empty |
| 5 | 58 | 0.30 | 0.73 | 13 | empty |
Interfaces
17 interfaces between chains.
- H–L · 469 Ų buried · 0 hydrogen bonds · protein-protein
- G–K · 458 Ų buried · 0 hydrogen bonds · protein-protein
- E–I · 448 Ų buried · 0 hydrogen bonds · protein-protein
- F–J · 437 Ų buried · 0 hydrogen bonds · protein-protein
- D–L · 117 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3J0F · Sindbis virion · the same entry in another collection · chain A against A, 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 P03316
- Elsewhere: RCSB PDB 3J0F · PDBe 3J0F · UniProt P03316
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