MolNFT v1 · #176856 · protein
Apo spike protein from SARS-COV2
7DZW · Spike glycoprotein: “Apo spike protein from SARS-COV2”. Electron microscopy, 20 pockets (best druggability 0.69). MolNFT v1 #176856 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7DZW
- Type
- protein
- Length
- 3,363 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spike glycoprotein
- UniProt
- P0DTC2
- Pockets
- 20 · best druggability 0.69
Structure
electron microscopy · 1 distinct chain · 23% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Spike glycoprotein | protein | 1121 | 23% helix, 29% strand | P0DTC2 |
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 | 995 | 0.69 | 0.75 | 109 | empty |
| 2 | 755 | 0.69 | 0.77 | 93 | empty |
| 3 | 1017 | 0.69 | 0.74 | 128 | empty |
| 4 | 784 | 0.68 | 0.76 | 108 | empty |
| 5 | 687 | 0.68 | 0.77 | 103 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1250 Ų buried · 18 hydrogen bonds · protein-protein
- B–C · 1154 Ų buried · 29 hydrogen bonds · protein-protein
- A–B · 1035 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 7DZW · Apo spike protein from SARS-CoV2 · 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 7DZW · PDBe 7DZW · UniProt P0DTC2
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