Research workbench
Cryoem structure of human enterovirus D68 expanded 1 particle (pH 6.5, 4 degrees celsius, 3 min)
Analyse Cryoem structure of human enterovirus D68 expanded 1 particle (pH 6.5, 4… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MZI
- Type
- protein
- Length
- 768 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Viral protein 1; Viral protein 3; Viral protein 2; Viral protein 4
- UniProt
- A0A097BW12, A0A0A7X639, A0A126D252
- Pockets
- 11 · best druggability 0.72
Structure
electron microscopy · 4 distinct chains · 10% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Viral protein 1 | protein | 267 | 8% helix, 33% strand | A0A097BW12 |
| B | Viral protein 3 | protein | 240 | 9% helix, 29% strand | A0A097BW12 |
| C | Viral protein 2 | protein | 233 | 11% helix, 38% strand | A0A0A7X639 |
| D | Viral protein 4 | protein | 28 | 14% helix, 7% strand | A0A126D252 |
Pockets
11 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 295 | 0.72 | 0.85 | 32 | empty |
| 2 | 118 | 0.46 | 0.79 | 23 | empty |
| 3 | 159 | 0.46 | 0.76 | 32 | empty |
| 4 | 134 | 0.46 | 0.77 | 23 | empty |
| 5 | 176 | 0.44 | 0.74 | 20 | empty |
Interfaces
6 interfaces between chains.
- A–B · 4160 Ų buried · 52 hydrogen bonds · protein-protein
- A–C · 2103 Ų buried · 37 hydrogen bonds · protein-protein
- B–C · 1784 Ų buried · 21 hydrogen bonds · protein-protein
- A–D · 881 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 817 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6MZI · CryoEM structure of human enterovirus D68 expanded 1 particle (pH 6.5, 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 A0A0A7X639
- Every structure of UniProt A0A126D252
- Elsewhere: RCSB PDB 6MZI · PDBe 6MZI · UniProt A0A097BW12 · UniProt A0A0A7X639 · UniProt A0A126D252
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