MolNFT v1 · #35496 · protein
Crystal structure of envelope protein VP28 from white spot syndrome virus (wssv)
2ED6 · 25KDA structural protein VP25: “Crystal structure of envelope protein VP28 from white spot syndrome virus (wssv)”. X-ray diffraction, 12 pockets (best druggability 0.86). MolNFT v1 #35496 on GenesisL1: 3D structure, binding sites…
- PDB
- 2ED6
- Type
- protein
- Length
- 2,040 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 25KDA structural protein VP25
- UniProt
- Q9ICB7
- Pockets
- 12 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 14% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | 25KDA structural protein VP25 | protein | 170 | 14% helix, 44% strand | Q9ICB7 |
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 893 | 0.86 | 0.88 | 98 | empty |
| 2 | 928 | 0.86 | 0.87 | 104 | empty |
| 3 | 785 | 0.84 | 0.87 | 105 | empty |
| 4 | 589 | 0.83 | 0.88 | 62 | empty |
| 5 | 189 | 0.80 | 0.95 | 28 | empty |
Interfaces
18 interfaces between chains.
- J–K · 1226 Ų buried · 13 hydrogen bonds · protein-protein
- D–E · 1223 Ų buried · 15 hydrogen bonds · protein-protein
- E–F · 1214 Ų buried · 15 hydrogen bonds · protein-protein
- G–H · 1203 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 1203 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 2ED6 · Crystal Structure of Envelope Protein VP28 from White Spot Syndrome Virus (WSSV) · 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 Q9ICB7
- Elsewhere: RCSB PDB 2ED6 · PDBe 2ED6 · UniProt Q9ICB7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.