MolNFT v1 · #141811 · protein
Crystal structure of in vitro expressed and assembled PCV2 virus-like particle
5ZJU · Capsid protein: “Crystal structure of in vitro expressed and assembled PCV2 virus-like particle”. X-ray diffraction, 20 pockets (best druggability 0.81). MolNFT v1 #141811 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5ZJU
- Type
- protein
- Length
- 11,290 residues
- Chains
- 60
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein
- UniProt
- G0Y2B2
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 2% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, 1, 3, 4, 5, 6, 7, 8, b, c, d, f, g, h, i, j, l, m, n, o, q, s, t, u, v, w | Capsid protein | protein | 188 | 2% helix, 51% strand | G0Y2B2 |
| L, 2, 9, a, e, k, p, r, x, y | Capsid protein | protein | 189 | 2% helix, 49% strand | G0Y2B2 |
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 | 166 | 0.81 | 0.96 | 45 | empty |
| 2 | 161 | 0.81 | 0.96 | 47 | empty |
| 3 | 208 | 0.80 | 0.94 | 59 | empty |
| 4 | 149 | 0.80 | 0.97 | 39 | empty |
| 5 | 163 | 0.80 | 0.96 | 45 | empty |
Interfaces
158 interfaces between chains.
- f–k · 1141 Ų buried · 26 hydrogen bonds · protein-protein
- V–d · 1140 Ų buried · 27 hydrogen bonds · protein-protein
- E–R · 1135 Ų buried · 24 hydrogen bonds · protein-protein
- N–4 · 1134 Ų buried · 21 hydrogen bonds · protein-protein
- t–w · 1133 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 5ZJU · Crystal structure of in vitro expressed and assembled PCV2 Virus-like Particle · the same entry in another collection · chain B against B, 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 G0Y2B2
- Elsewhere: RCSB PDB 5ZJU · PDBe 5ZJU · UniProt G0Y2B2
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