MolNFT v1 · #155760 · protein
The cryo-EM structure of coxsackievirus A16 empty particle in complex with Fab 18A7
6LHO · VP1 protein: “The cryo-EM structure of coxsackievirus A16 empty particle in complex with Fab 18A7”. Electron microscopy, 9 pockets (best druggability 0.61). MolNFT v1 #155760 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6LHO
- Type
- protein
- Length
- 635 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- VP1 protein; VP2 protein; VP3 protein
- EC
- 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48
- UniProt
- A0A2S1BJ89, A0A1D3TZV2, A0A2R4NBT3
- Pockets
- 9 · best druggability 0.61
Structure
electron microscopy · 3 distinct chains · 7% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | VP1 protein | protein | 208 | 2% helix, 35% strand | A0A2S1BJ89 |
| B | VP2 protein (EC 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48) | protein | 208 | 9% helix, 37% strand | A0A1D3TZV2 |
| C | VP3 protein (EC 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48) | protein | 219 | 11% helix, 29% strand | A0A2R4NBT3 |
Pockets
9 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 236 | 0.61 | 0.81 | 33 | empty |
| 2 | 116 | 0.46 | 0.79 | 21 | empty |
| 3 | 151 | 0.45 | 0.76 | 24 | empty |
| 4 | 133 | 0.43 | 0.76 | 26 | empty |
| 5 | 79 | 0.43 | 0.80 | 22 | empty |
Interfaces
3 interfaces between chains.
- A–C · 2763 Ų buried · 39 hydrogen bonds · protein-protein
- B–C · 1573 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1489 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 6LHO · The cryo-EM structure of coxsackievirus A16 empty particle in complex with Fab 18A7 · 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 A0A2S1BJ89
- Every structure of UniProt A0A1D3TZV2
- Every structure of UniProt A0A2R4NBT3
- Elsewhere: RCSB PDB 6LHO · PDBe 6LHO · UniProt A0A2S1BJ89 · UniProt A0A1D3TZV2 · UniProt A0A2R4NBT3
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