MolNFT v1 · #150079 · protein
The baseplate complex from the type VI secretion system
6GJ1 · Putative type VI secretion protein: “The baseplate complex from the type VI secretion system”. Electron microscopy, 20 pockets (best druggability 0.90). MolNFT v1 #150079 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6GJ1
- Type
- protein
- Length
- 1,638 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative type VI secretion protein; Tssg; Tsse
- UniProt
- D3GUX3, B7LFT6, B7LFT4
- Pockets
- 20 · best druggability 0.90
Structure
electron microscopy · 4 distinct chains · 22% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative type VI secretion protein | protein | 584 | 19% helix, 9% strand | D3GUX3 |
| B | Putative type VI secretion protein | protein | 583 | 21% helix, 9% strand | D3GUX3 |
| C | Tssg | protein | 350 | 27% helix, 5% strand | B7LFT6 |
| D | Tsse | protein | 121 | 32% helix, 21% strand | B7LFT4 |
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 | 1014 | 0.90 | 0.91 | 141 | empty |
| 2 | 992 | 0.89 | 0.91 | 146 | empty |
| 3 | 888 | 0.88 | 0.90 | 117 | empty |
| 4 | 1035 | 0.88 | 0.89 | 112 | empty |
| 5 | 828 | 0.84 | 0.86 | 90 | empty |
Interfaces
6 interfaces between chains.
- B–C · 3165 Ų buried · 29 hydrogen bonds · protein-protein
- A–C · 3141 Ų buried · 25 hydrogen bonds · protein-protein
- A–B · 2160 Ų buried · 19 hydrogen bonds · protein-protein
- A–D · 555 Ų buried · 33 hydrogen bonds · protein-protein
- C–D · 413 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 6GJ1 · 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 D3GUX3
- Every structure of UniProt B7LFT6
- Every structure of UniProt B7LFT4
- Elsewhere: RCSB PDB 6GJ1 · PDBe 6GJ1 · UniProt D3GUX3 · UniProt B7LFT6 · UniProt B7LFT4
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