MolNFT v1 · #189602 · protein
Crystal structure of SARS-cov spike receptor-binding domain complexed with neutralizing antibody
7VMU · Scfv E4: “Crystal structure of SARS-cov spike receptor-binding domain complexed with neutralizing antibody”. X-ray diffraction, 3 pockets (best druggability 0.52). MolNFT v1 #189602 on GenesisL1: 3D structure, binding sites and…
- PDB
- 7VMU
- Type
- protein
- Length
- 396 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Scfv E4; Spike protein S1
- UniProt
- P0DTC2
- Pockets
- 3 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Scfv E4 | protein | 220 | 7% helix, 49% strand | — |
| B | Spike protein S1 | protein | 176 | 14% helix, 27% strand | P0DTC2 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.52 | 0.82 | 20 | empty |
| 2 | 72 | 0.29 | 0.72 | 20 | empty |
| 3 | 57 | 0.27 | 0.73 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 1263 Ų buried · 30 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 7VMU · Crystal Structure of SARS-CoV Spike Receptor-Binding Domain Complexed with Neutralizing… · 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 P0DTC2
- Elsewhere: RCSB PDB 7VMU · PDBe 7VMU · UniProt P0DTC2
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