Research workbench
Enterovirus D68 in complex with human monoclonal antibody EV68-159
Analyse Enterovirus D68 in complex with human monoclonal antibody EV68-159 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WDS
- Type
- protein
- Length
- 1,025 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- EV68-159 light chain; Viral protein 1; Viral protein 2; Viral protein 3; Viral protein 4…
- UniProt
- A0A097BW12, A0A0A7X639, A0A126D252
- Pockets
- 13 · best druggability 0.76
Structure
electron microscopy · 6 distinct chains · 8% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | EV68-159 light chain | protein | 106 | 0% helix, 42% strand | — |
| A | Viral protein 1 | protein | 291 | 9% helix, 32% strand | A0A097BW12 |
| B | Viral protein 2 | protein | 238 | 13% helix, 37% strand | A0A0A7X639 |
| C | Viral protein 3 | protein | 245 | 8% helix, 30% strand | A0A097BW12 |
| D | Viral protein 4 | protein | 30 | 13% helix, 10% strand | A0A126D252 |
| H | EV68-159 heavy chain | protein | 115 | 3% helix, 32% strand | — |
Pockets
13 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 331 | 0.76 | 0.87 | 55 | empty |
| 2 | 231 | 0.70 | 0.87 | 38 | empty |
| 3 | 337 | 0.64 | 0.79 | 44 | empty |
| 4 | 330 | 0.63 | 0.79 | 29 | empty |
| 5 | 196 | 0.52 | 0.77 | 33 | empty |
Interfaces
12 interfaces between chains.
- A–C · 4623 Ų buried · 69 hydrogen bonds · protein-protein
- A–B · 2102 Ų buried · 39 hydrogen bonds · protein-protein
- B–C · 1822 Ų buried · 26 hydrogen bonds · protein-protein
- A–D · 896 Ų buried · 13 hydrogen bonds · protein-protein
- L–H · 853 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6WDS · Enterovirus D68 in complex with human monoclonal antibody EV68-159 · the same entry in another collection · chain L against L, 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 6WDS · PDBe 6WDS · UniProt A0A097BW12 · UniProt A0A0A7X639 · UniProt A0A126D252
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