Research workbench
Icosahedrally averaged capsid of bacteriophage P68
Analyse Icosahedrally averaged capsid of bacteriophage P68 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6IAT
- Type
- protein
- Length
- 1,746 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major head protein; Arstotzka protein
- UniProt
- Q859I3, Q859I2
- Pockets
- 20 · best druggability 0.75
Structure
electron microscopy · 6 distinct chains · 21% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, B | Major head protein | protein | 385 | 21% helix, 18% strand | Q859I3 |
| A | Major head protein | protein | 392 | 20% helix, 23% strand | Q859I3 |
| D | Major head protein | protein | 393 | 27% helix, 21% strand | Q859I3 |
| E | Arstotzka protein | protein | 54 | 0% helix, 0% strand | Q859I2 |
| F, H | Arstotzka protein | protein | 55 | 0% helix, 0% strand | Q859I2 |
| G | Arstotzka protein | protein | 27 | 19% helix, 0% strand | Q859I2 |
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 641 | 0.75 | 0.81 | 52 | empty |
| 2 | 655 | 0.72 | 0.79 | 53 | empty |
| 3 | 655 | 0.71 | 0.78 | 53 | empty |
| 4 | 627 | 0.69 | 0.77 | 61 | empty |
| 5 | 735 | 0.69 | 0.76 | 52 | empty |
Interfaces
17 interfaces between chains.
- C–B · 3149 Ų buried · 49 hydrogen bonds · protein-protein
- A–B · 3085 Ų buried · 38 hydrogen bonds · protein-protein
- A–D · 2260 Ų buried · 32 hydrogen bonds · protein-protein
- B–F · 1387 Ų buried · 17 hydrogen bonds · protein-protein
- A–H · 1295 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 6IAT · Icosahedrally averaged capsid of bacteriophage P68 · 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 Q859I3
- Every structure of UniProt Q859I2
- Elsewhere: RCSB PDB 6IAT · PDBe 6IAT · UniProt Q859I3 · UniProt Q859I2
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