MolNFT v1 · #127226 · protein
Structure of black queen cell virus
5MQC · VP1: “Structure of black queen cell virus”. X-ray diffraction, 8 pockets (best druggability 0.65). MolNFT v1 #127226 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5MQC
- Type
- protein
- Length
- 771 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- VP1; VP3; VP2
- UniProt
- Q9J7C2
- Pockets
- 8 · best druggability 0.65
Structure
x-ray diffraction · 3 distinct chains · 8% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | VP1 | protein | 280 | 11% helix, 34% strand | Q9J7C2 |
| C | VP3 | protein | 260 | 5% helix, 31% strand | Q9J7C2 |
| B | VP2 | protein | 231 | 8% helix, 36% strand | Q9J7C2 |
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 226 | 0.65 | 0.83 | 38 | empty |
| 2 | 217 | 0.59 | 0.80 | 29 | empty |
| 3 | 234 | 0.47 | 0.74 | 34 | empty |
| 4 | 88 | 0.45 | 0.81 | 23 | empty |
| 5 | 77 | 0.44 | 0.81 | 18 | empty |
Interfaces
3 interfaces between chains.
- A–C · 4737 Ų buried · 79 hydrogen bonds · protein-protein
- A–B · 1396 Ų buried · 15 hydrogen bonds · protein-protein
- C–B · 1242 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 5MQC · Structure of black queen cell virus · 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 Q9J7C2
- Elsewhere: RCSB PDB 5MQC · PDBe 5MQC · UniProt Q9J7C2
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