Research workbench
EM structure of VP1A and VP1B
Analyse EM structure of VP1A and VP1B in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5H0S
- Type
- protein
- Length
- 2,395 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- VP1
- UniProt
- D3JWE6
- Pockets
- 20 · best druggability 0.76
Structure
electron microscopy · 2 distinct chains · 31% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | VP1 | protein | 1148 | 34% helix, 16% strand | D3JWE6 |
| C | VP1 | protein | 1247 | 28% helix, 10% strand | D3JWE6 |
Pockets
20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 757 | 0.76 | 0.81 | 88 | empty |
| 2 | 886 | 0.74 | 0.78 | 100 | empty |
| 3 | 593 | 0.70 | 0.78 | 67 | empty |
| 4 | 121 | 0.69 | 0.91 | 25 | empty |
| 5 | 53 | 0.68 | 0.96 | 16 | empty |
Interfaces
1 interface between chains.
- B–C · 2463 Ų buried · 27 hydrogen bonds · protein-protein
Compared structures
- 5H0S · EM Structure of VP1A and VP1B · 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 D3JWE6
- Elsewhere: RCSB PDB 5H0S · PDBe 5H0S · UniProt D3JWE6
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