Research workbench
Cryoem structure of human enterovirus D68 emptied particle (pH 7.2 and 4 degrees celsius)
Analyse Cryoem structure of human enterovirus D68 emptied particle (pH 7.2 and 4… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6CRU
- Type
- protein
- Length
- 653 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Viral protein 1; Viral protein 3; Viral protein 2
- UniProt
- A0A097BW12, A0A1I9KXX3
- Pockets
- 5 · best druggability 0.61
Structure
electron microscopy · 3 distinct chains · 9% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Viral protein 1 | protein | 199 | 8% helix, 41% strand | A0A097BW12 |
| B | Viral protein 3 | protein | 236 | 8% helix, 29% strand | A0A097BW12 |
| C | Viral protein 2 | protein | 218 | 10% helix, 36% strand | A0A1I9KXX3 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 223 | 0.61 | 0.81 | 26 | empty |
| 2 | 81 | 0.33 | 0.74 | 16 | empty |
| 3 | 73 | 0.33 | 0.75 | 14 | empty |
| 4 | 53 | 0.25 | 0.73 | 15 | empty |
| 5 | 56 | 0.24 | 0.72 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2657 Ų buried · 39 hydrogen bonds · protein-protein
- B–C · 1774 Ų buried · 17 hydrogen bonds · protein-protein
- A–C · 1732 Ų buried · 40 hydrogen bonds · protein-protein
Compared structures
- 6CRU · CryoEM structure of human enterovirus D68 emptied particle (pH 7.2 and 4 degrees Celsius) · 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 A0A097BW12
- Every structure of UniProt A0A1I9KXX3
- Elsewhere: RCSB PDB 6CRU · PDBe 6CRU · UniProt A0A097BW12 · UniProt A0A1I9KXX3
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