MolNFT v1 · #152549 · protein
Cryo-EM structure of echovirus 6 complexed with its uncoating receptor fcrn at pH 5.5
6ILL · Capsid protein VP1: “Cryo-EM structure of echovirus 6 complexed with its uncoating receptor fcrn at pH 5.5”. Electron microscopy, 11 pockets (best druggability 0.70). MolNFT v1 #152549 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6ILL
- Type
- protein
- Length
- 821 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein VP1; Capsid protein VP2; Capsid protein VP3; Capsid protein VP4
- Pockets
- 11 · best druggability 0.70
Structure
electron microscopy · 4 distinct chains · 6% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein VP1 | protein | 273 | 7% helix, 26% strand | — |
| B | Capsid protein VP2 | protein | 252 | 6% helix, 29% strand | — |
| C | Capsid protein VP3 | protein | 238 | 8% helix, 25% strand | — |
| D | Capsid protein VP4 | protein | 58 | 0% helix, 16% strand | — |
Pockets
11 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 329 | 0.70 | 0.83 | 64 | empty |
| 2 | 95 | 0.51 | 0.83 | 23 | empty |
| 3 | 108 | 0.44 | 0.78 | 24 | empty |
| 4 | 70 | 0.44 | 0.81 | 16 | empty |
| 5 | 50 | 0.36 | 0.80 | 14 | empty |
Interfaces
6 interfaces between chains.
- A–C · 4322 Ų buried · 49 hydrogen bonds · protein-protein
- A–B · 2175 Ų buried · 28 hydrogen bonds · protein-protein
- B–C · 1595 Ų buried · 16 hydrogen bonds · protein-protein
- A–D · 1179 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 940 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6ILL · Cryo-EM structure of Echovirus 6 complexed with its uncoating receptor FcRn at PH 5.5 · 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
- Elsewhere: RCSB PDB 6ILL · PDBe 6ILL
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