MolNFT v1 · #181096 · protein
Crystal structure of SARS-cov-2 rbd-targeting antibody COV107-23 hc + COVD21-C8 lc
7LK9 · COV107-23 heavy chain: “Crystal structure of SARS-cov-2 rbd-targeting antibody COV107-23 hc + COVD21-C8 lc”. X-ray diffraction, 20 pockets (best druggability 0.80). MolNFT v1 #181096 on GenesisL1: 3D structure, binding sites and…
- PDB
- 7LK9
- Type
- protein
- Length
- 1,707 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- COV107-23 heavy chain; COVD21-C8 light chain
- Pockets
- 20 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 6% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H, A, C, M | COV107-23 heavy chain | protein | 214 | 5% helix, 53% strand | — |
| L, B, D | COVD21-C8 light chain | protein | 214 | 8% helix, 51% strand | — |
| N | COVD21-C8 light chain | protein | 209 | 5% helix, 48% strand | — |
Pockets
20 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 973 | 0.80 | 0.82 | 114 | empty |
| 2 | 407 | 0.67 | 0.80 | 48 | empty |
| 3 | 459 | 0.64 | 0.77 | 50 | empty |
| 4 | 182 | 0.62 | 0.83 | 24 | empty |
| 5 | 234 | 0.61 | 0.81 | 34 | empty |
Interfaces
17 interfaces between chains.
- M–N · 1727 Ų buried · 13 hydrogen bonds · protein-protein
- C–D · 1707 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 1655 Ų buried · 7 hydrogen bonds · protein-protein
- H–L · 1634 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 522 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 7LK9 · Crystal structure of SARS-CoV-2 RBD-targeting antibody COV107-23 HC + COVD21-C8 LC · the same entry in another collection · chain H against H, 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 7LK9 · PDBe 7LK9
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