Research workbench
Cryo-EM structure of the bacteriophage T4 portal protein assembly at near-atomic resolution
Analyse Cryo-EM structure of the bacteriophage T4 portal protein assembly at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3JA7
- Type
- protein
- Length
- 5,136 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Portal protein GP20
- UniProt
- P13334
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 1 distinct chain · 41% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Portal protein GP20 | protein | 428 | 41% helix, 10% strand | P13334 |
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 | 1058 | 0.88 | 0.89 | 108 | empty |
| 2 | 968 | 0.88 | 0.89 | 100 | empty |
| 3 | 754 | 0.88 | 0.91 | 78 | empty |
| 4 | 999 | 0.88 | 0.89 | 107 | empty |
| 5 | 1115 | 0.86 | 0.88 | 104 | empty |
Interfaces
24 interfaces between chains.
- E–F · 4376 Ų buried · 41 hydrogen bonds · protein-protein
- K–L · 4368 Ų buried · 41 hydrogen bonds · protein-protein
- J–K · 4367 Ų buried · 41 hydrogen bonds · protein-protein
- F–G · 4366 Ų buried · 41 hydrogen bonds · protein-protein
- I–J · 4363 Ų buried · 41 hydrogen bonds · protein-protein
Compared structures
- 3JA7 · Cryo-EM structure of the bacteriophage T4 portal protein assembly at near-atomic… · 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 P13334
- Elsewhere: RCSB PDB 3JA7 · PDBe 3JA7 · UniProt P13334
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