Research workbench
Designed tetrahedral nanoparticle T33-31 presenting BG505 sosip trimers
Analyse Designed tetrahedral nanoparticle T33-31 presenting BG505 sosip trimers in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7L85
- Type
- protein
- Length
- 2,664 residues
- Chains
- 24
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- BG505 sosip-T33-31B; BG505 sosip-T33-31A
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 2 distinct chains · 32% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, C, E, G, I, K, M, O, Q, S, V, X | BG505 sosip-T33-31B | protein | 118 | 30% helix, 27% strand | — |
| A, D, F, H, J, L, N, P, R, T, W, Y | BG505 sosip-T33-31A | protein | 104 | 35% helix, 38% strand | — |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.80 | 0.97 | 18 | empty |
| 2 | 104 | 0.80 | 0.97 | 18 | empty |
| 3 | 103 | 0.80 | 0.97 | 18 | empty |
| 4 | 104 | 0.80 | 0.97 | 19 | empty |
| 5 | 982 | 0.76 | 0.78 | 102 | empty |
Interfaces
48 interfaces between chains.
- J–N · 1135 Ų buried · 13 hydrogen bonds · protein-protein
- H–P · 1134 Ų buried · 14 hydrogen bonds · protein-protein
- D–R · 1133 Ų buried · 14 hydrogen bonds · protein-protein
- F–J · 1130 Ų buried · 14 hydrogen bonds · protein-protein
- F–N · 1130 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 7L85 · Designed tetrahedral nanoparticle T33-31 presenting BG505 SOSIP trimers · the same entry in another collection · chain B against B, 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 7L85 · PDBe 7L85
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