Research workbench
The baseplate complex from the type VI secretion system
Analyse The baseplate complex from the type VI secretion system in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GJ3
- Type
- protein
- Length
- 2,194 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 4.3
- Source
- Escherichia coli
- Molecule
- TssG; TssK
- UniProt
- H4UNW2, H4UNX9
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · resolution 4.3 · 3 distinct chains · 25% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | TssG | protein | 62 | 0% helix, 0% strand | H4UNW2 |
| D, E, F, I | TssK | protein | 311 | 29% helix, 18% strand | H4UNX9 |
| G, H | TssK | protein | 444 | 26% helix, 21% strand | H4UNX9 |
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 | 442 | 0.86 | 0.93 | 41 | empty |
| 2 | 585 | 0.85 | 0.91 | 69 | empty |
| 3 | 353 | 0.85 | 0.94 | 32 | empty |
| 4 | 570 | 0.83 | 0.89 | 62 | empty |
| 5 | 701 | 0.83 | 0.87 | 61 | empty |
Interfaces
16 interfaces between chains.
- G–H · 2968 Ų buried · 32 hydrogen bonds · protein-protein
- D–F · 2929 Ų buried · 23 hydrogen bonds · protein-protein
- G–I · 2859 Ų buried · 21 hydrogen bonds · protein-protein
- H–I · 2847 Ų buried · 23 hydrogen bonds · protein-protein
- E–F · 2825 Ų buried · 27 hydrogen bonds · protein-protein
Compared structures
- 6GJ3 · The baseplate complex from the type VI secretion system · the same entry in another collection · chain C against C, 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 H4UNW2
- Every structure of UniProt H4UNX9
- Elsewhere: RCSB PDB 6GJ3 · PDBe 6GJ3 · UniProt H4UNW2 · UniProt H4UNX9
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