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
- 6GIY
- Type
- protein
- Length
- 3,649 residues
- Chains
- 9
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tssf; Tssg; Tssk
- UniProt
- B7LFT7, B7LFT6, B7LG64
- Pockets
- 20 · best druggability 0.89
Structure
electron microscopy · 5 distinct chains · 24% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tssf | protein | 584 | 17% helix, 10% strand | B7LFT7 |
| B | Tssf | protein | 583 | 24% helix, 11% strand | B7LFT7 |
| C | Tssg | protein | 350 | 28% helix, 7% strand | B7LFT6 |
| D, E, F, I | Tssk | protein | 311 | 29% helix, 21% strand | B7LG64 |
| G, H | Tssk | protein | 444 | 26% helix, 23% strand | B7LG64 |
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 | 825 | 0.89 | 0.91 | 129 | empty |
| 2 | 1118 | 0.88 | 0.90 | 140 | empty |
| 3 | 1176 | 0.87 | 0.88 | 134 | empty |
| 4 | 632 | 0.87 | 0.91 | 81 | empty |
| 5 | 933 | 0.87 | 0.88 | 113 | empty |
Interfaces
21 interfaces between chains.
- B–C · 3305 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 3273 Ų buried · 20 hydrogen bonds · protein-protein
- G–H · 2990 Ų buried · 32 hydrogen bonds · protein-protein
- D–F · 2926 Ų buried · 22 hydrogen bonds · protein-protein
- G–I · 2868 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 6GIY · The baseplate complex from the type VI secretion system · 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 B7LFT7
- Every structure of UniProt B7LFT6
- Every structure of UniProt B7LG64
- Elsewhere: RCSB PDB 6GIY · PDBe 6GIY · UniProt B7LFT7 · UniProt B7LFT6 · UniProt B7LG64
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