Research workbench
Pbcv-1 virus capsid, quasi-atomic model
Analyse Pbcv-1 virus capsid, quasi-atomic model in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1M4X
- Type
- protein
- Length
- 1,239 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pbcv-1 virus capsid
- Pockets
- 16 · best druggability 0.71
Structure
electron microscopy · 1 distinct chain · 18% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Pbcv-1 virus capsid | protein | 413 | 18% helix, 36% strand | — |
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 53 | 0.71 | 0.99 | 25 | empty |
| 2 | 509 | 0.67 | 0.78 | 54 | empty |
| 3 | 459 | 0.67 | 0.79 | 51 | empty |
| 4 | 484 | 0.67 | 0.78 | 50 | empty |
| 5 | 457 | 0.64 | 0.77 | 66 | empty |
Interfaces
3 interfaces between chains.
- A–C · 2309 Ų buried · 29 hydrogen bonds · protein-protein
- A–B · 2307 Ų buried · 29 hydrogen bonds · protein-protein
- B–C · 2307 Ų buried · 29 hydrogen bonds · protein-protein
Compared structures
- 1M4X · PBCV-1 virus capsid, quasi-atomic model · 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 1M4X · PDBe 1M4X
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