MolNFT v1 · #55619 · protein
Structure of BVDV1 envelope glycoprotein E2, PH8
2YQ2 · BVDV1 E2: “Structure of BVDV1 envelope glycoprotein E2, PH8”. X-ray diffraction, 1 ligand (NAG), 1 pocket (best druggability 0.32). MolNFT v1 #55619 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2YQ2
- Type
- protein
- Length
- 662 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- BVDV1 E2
- Ligands
- NAG
- Pockets
- 1 · best druggability 0.32
Structure
x-ray diffraction · 2 distinct chains · 3% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | BVDV1 E2 | protein | 332 | 3% helix, 48% strand | — |
| B | BVDV1 E2 | protein | 330 | 3% helix, 46% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 76 | 0.32 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 2377 Ų buried · 30 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 17 disulfide, 6 glycan (disulfide, N-glycosylation).
Compared structures
- 2YQ2 · Structure of BVDV1 envelope glycoprotein E2, pH8 · 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 2YQ2 · PDBe 2YQ2
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