MolNFT v1 · #164722 · protein
3C-like protease from southampton virus complexed with XST00000375B.
6T71 · Genome polyprotein: “3C-like protease from southampton virus complexed with XST00000375B.”. X-ray diffraction, 2 ligands (MQB, PO4), 4 pockets (best druggability 0.36). MolNFT v1 #164722 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6T71
- Type
- protein
- Length
- 343 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Genome polyprotein
- EC
- 3.6.1.15, 3.4.22.66, 2.7.7.48
- UniProt
- Q04544
- Ligands
- MQB, PO4
- Pockets
- 4 · best druggability 0.36
Structure
x-ray diffraction · 2 distinct chains · 8% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Genome polyprotein (EC 3.6.1.15, 3.4.22.66, 2.7.7.48) | protein | 172 | 8% helix, 52% strand | Q04544 |
| B | Genome polyprotein (EC 3.6.1.15, 3.4.22.66, 2.7.7.48) | protein | 171 | 8% helix, 50% strand | Q04544 |
Ligands and binding sites
- MQB · 2-(1-benzofuran-3-yl)ethanoic acid · ligand · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · chains A
- DMS · Dimethyl sulfoxide · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 53 | 0.36 | 0.79 | 11 | DMS |
| 2 | 76 | 0.35 | 0.76 | 19 | empty |
| 3 | 55 | 0.28 | 0.74 | 15 | empty |
| 4 | 51 | 0.25 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 968 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6T71 · 3C-like protease from Southampton virus complexed with XST00000375b. · 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 Q04544
- Elsewhere: RCSB PDB 6T71 · PDBe 6T71 · UniProt Q04544
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.