MolNFT v1 · #171781 · protein
Furin cleaved spike protein of SARS-cov-2 in intermediate conformation
6ZGH · Spike glycoprotein: “Furin cleaved spike protein of SARS-cov-2 in intermediate conformation”. Electron microscopy, 20 pockets (best druggability 0.82). MolNFT v1 #171781 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6ZGH
- Type
- protein
- Length
- 3,032 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spike glycoprotein
- UniProt
- P0DTC2
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 3 distinct chains · 20% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Spike glycoprotein | protein | 875 | 22% helix, 32% strand | P0DTC2 |
| B | Spike glycoprotein | protein | 1077 | 19% helix, 30% strand | P0DTC2 |
| C | Spike glycoprotein | protein | 1080 | 19% helix, 30% 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 | 797 | 0.82 | 0.85 | 92 | empty |
| 2 | 469 | 0.81 | 0.89 | 54 | empty |
| 3 | 557 | 0.81 | 0.87 | 82 | empty |
| 4 | 462 | 0.81 | 0.88 | 42 | empty |
| 5 | 1008 | 0.80 | 0.81 | 104 | empty |
Interfaces
3 interfaces between chains.
- B–C · 5756 Ų buried · 47 hydrogen bonds · protein-protein
- A–C · 5370 Ų buried · 45 hydrogen bonds · protein-protein
- A–B · 4457 Ų buried · 28 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 38 disulfide (disulfide).
Compared structures
- 6ZGH · Furin Cleaved Spike Protein of SARS-CoV-2 in Intermediate Conformation · 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 6ZGH · PDBe 6ZGH · UniProt P0DTC2
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