MolNFT v1 · #154049 · protein
GII.13/21 noroviruses recognize glycans with a terminal beta-galactose via an unconventional glycan binding site
6JYO · Norovirus P domain protein: “GII.13/21 noroviruses recognize glycans with a terminal beta-galactose via an unconventional glycan binding…”. X-ray diffraction, 15 pockets (best druggability 0.76). MolNFT v1 #154049 on GenesisL1: 3D…
- PDB
- 6JYO
- Type
- protein
- Length
- 1,234 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Norovirus P domain protein
- Pockets
- 15 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Norovirus P domain protein | protein | 309 | 7% helix, 36% strand | — |
| D | Norovirus P domain protein | protein | 307 | 7% helix, 34% strand | — |
Pockets
15 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 247 | 0.76 | 0.90 | 34 | empty |
| 2 | 412 | 0.75 | 0.85 | 58 | empty |
| 3 | 241 | 0.74 | 0.88 | 34 | empty |
| 4 | 81 | 0.72 | 0.96 | 27 | empty |
| 5 | 465 | 0.69 | 0.80 | 54 | empty |
Interfaces
4 interfaces between chains.
- B–D · 2258 Ų buried · 39 hydrogen bonds · protein-protein
- A–C · 2154 Ų buried · 34 hydrogen bonds · protein-protein
- B–C · 223 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 37 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6JYO · GII.13/21 noroviruses recognize glycans with a terminal beta-galactose via an… · 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
- Elsewhere: RCSB PDB 6JYO · PDBe 6JYO
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