MolNFT v1 · #171780 · protein
Furin cleaved spike protein of SARS-cov-2 with one rbd erect
6ZGG · Spike glycoprotein: “Furin cleaved spike protein of SARS-cov-2 with one rbd erect”. Electron microscopy, 20 pockets (best druggability 0.87). MolNFT v1 #171780 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6ZGG
- Type
- protein
- Length
- 3,207 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spike glycoprotein
- UniProt
- P0DTC2
- Pockets
- 20 · best druggability 0.87
Structure
electron microscopy · 3 distinct chains · 19% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Spike glycoprotein | protein | 1069 | 19% helix, 28% strand | P0DTC2 |
| B | Spike glycoprotein | protein | 1071 | 19% helix, 30% strand | P0DTC2 |
| C | Spike glycoprotein | protein | 1067 | 19% helix, 28% 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 | 1028 | 0.87 | 0.88 | 121 | empty |
| 2 | 495 | 0.84 | 0.90 | 45 | empty |
| 3 | 853 | 0.83 | 0.85 | 95 | empty |
| 4 | 639 | 0.81 | 0.86 | 68 | empty |
| 5 | 120 | 0.80 | 0.97 | 25 | empty |
Interfaces
3 interfaces between chains.
- A–C · 4999 Ų buried · 34 hydrogen bonds · protein-protein
- A–B · 4830 Ų buried · 35 hydrogen bonds · protein-protein
- B–C · 4222 Ų buried · 35 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 42 disulfide (disulfide).
Compared structures
- 6ZGG · Furin Cleaved Spike Protein of SARS-CoV-2 with One RBD Erect · 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 6ZGG · PDBe 6ZGG · UniProt P0DTC2
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