Research workbench
PRD1 vertex protein P5
Analyse PRD1 vertex protein P5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1YQ6
- Type
- protein
- Length
- 432 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Minor capsid protein
- UniProt
- P22536
- Pockets
- 3 · best druggability 0.45
Structure
x-ray diffraction · 1 distinct chain · 0% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Minor capsid protein | protein | 144 | 0% helix, 51% strand | P22536 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 100 | 0.45 | 0.79 | 24 | empty |
| 2 | 91 | 0.45 | 0.80 | 22 | empty |
| 3 | 97 | 0.42 | 0.78 | 24 | empty |
Interfaces
3 interfaces between chains.
- B–C · 971 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 963 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 963 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 1YQ6 · PRD1 vertex protein P5 · 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 P22536
- Elsewhere: RCSB PDB 1YQ6 · PDBe 1YQ6 · UniProt P22536
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.