MolNFT v1 · #151038 · protein
Echovirus 18 empty particle
6HBJ · Viral protein 1: “Echovirus 18 empty particle”. Electron microscopy, 9 pockets (best druggability 0.57). MolNFT v1 #151038 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6HBJ
- Type
- protein
- Length
- 661 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Viral protein 1; Viral protein 2; Viral protein 3
- EC
- 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48
- UniProt
- Q8V635
- Pockets
- 9 · best druggability 0.57
Structure
electron microscopy · 3 distinct chains · 8% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Viral protein 1 (EC 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48) | protein | 205 | 11% helix, 35% strand | Q8V635 |
| B | Viral protein 2 (EC 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48) | protein | 237 | 6% helix, 32% strand | Q8V635 |
| C | Viral protein 3 (EC 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48) | protein | 219 | 8% helix, 34% strand | Q8V635 |
Pockets
9 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 177 | 0.57 | 0.81 | 47 | empty |
| 2 | 63 | 0.41 | 0.80 | 19 | empty |
| 3 | 88 | 0.38 | 0.76 | 27 | empty |
| 4 | 120 | 0.36 | 0.73 | 15 | empty |
| 5 | 65 | 0.34 | 0.77 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–C · 2783 Ų buried · 35 hydrogen bonds · protein-protein
- A–B · 1525 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 1419 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6HBJ · Echovirus 18 empty particle · 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 Q8V635
- Elsewhere: RCSB PDB 6HBJ · PDBe 6HBJ · UniProt Q8V635
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