MolNFT v1 · #159597 · protein
Asymmetric focused reconstruction of human norovirus GI.1 norwalk strain vlp asymmetric unit in T=3 symmetry
6OUT · Capsid protein VP1: “Asymmetric focused reconstruction of human norovirus GI.1 norwalk strain vlp asymmetric unit in T=3 symmetry”. Electron microscopy, 10 pockets (best druggability 0.88). MolNFT v1 #159597 on GenesisL1: 3D…
- PDB
- 6OUT
- Type
- protein
- Length
- 1,494 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein VP1
- UniProt
- Q83884
- Pockets
- 10 · best druggability 0.88
Structure
electron microscopy · 3 distinct chains · 8% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein VP1 | protein | 492 | 8% helix, 33% strand | Q83884 |
| B | Capsid protein VP1 | protein | 511 | 9% helix, 31% strand | Q83884 |
| C | Capsid protein VP1 | protein | 491 | 8% helix, 33% strand | Q83884 |
Pockets
10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1036 | 0.88 | 0.89 | 143 | empty |
| 2 | 714 | 0.80 | 0.84 | 83 | empty |
| 3 | 991 | 0.77 | 0.80 | 95 | empty |
| 4 | 406 | 0.67 | 0.80 | 67 | empty |
| 5 | 189 | 0.66 | 0.85 | 35 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2316 Ų buried · 24 hydrogen bonds · protein-protein
- B–C · 1972 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 1007 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6OUT · Asymmetric focused reconstruction of human norovirus GI.1 Norwalk strain VLP asymmetric… · 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 Q83884
- Elsewhere: RCSB PDB 6OUT · PDBe 6OUT · UniProt Q83884
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