Research workbench
Expanded poliovirus in complex with vhh 7A
Analyse Expanded poliovirus in complex with vhh 7A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5KU2
- Type
- protein
- Length
- 771 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- VP1; VP2; VP3; Vhh 7A
- UniProt
- P03300
- Pockets
- 9 · best druggability 0.77
Structure
electron microscopy · 4 distinct chains · 9% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 1 | VP1 | protein | 191 | 7% helix, 39% strand | P03300 |
| 2 | VP2 | protein | 235 | 13% helix, 35% strand | P03300 |
| 3 | VP3 | protein | 221 | 11% helix, 29% strand | P03300 |
| 7 | Vhh 7A | protein | 124 | 2% helix, 34% strand | — |
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 440 | 0.77 | 0.86 | 64 | empty |
| 2 | 439 | 0.63 | 0.77 | 64 | empty |
| 3 | 265 | 0.49 | 0.74 | 34 | empty |
| 4 | 81 | 0.47 | 0.81 | 14 | empty |
| 5 | 61 | 0.46 | 0.83 | 18 | empty |
Interfaces
4 interfaces between chains.
- 1–3 · 2055 Ų buried · 29 hydrogen bonds · protein-protein
- 2–3 · 1583 Ų buried · 18 hydrogen bonds · protein-protein
- 1–2 · 1250 Ų buried · 14 hydrogen bonds · protein-protein
- 3–7 · 984 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 5KU2 · expanded poliovirus in complex with VHH 7A · the same entry in another collection · chain 1 against 1, 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 P03300
- Elsewhere: RCSB PDB 5KU2 · PDBe 5KU2 · UniProt P03300
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