Research workbench
Crystal structure of E. COLI toxin type III toxin-antitoxin complex
Analyse Crystal structure of E. COLI toxin type III toxin-antitoxin complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7D8O
- Type
- protein + RNA
- Length
- 1,194 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Type III toxin-antitoxin system TOXN/ABIQ family toxin; Antitoxin RNA
- Pockets
- 16 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K | Type III toxin-antitoxin system TOXN/ABIQ family toxin | protein | 163 | 38% helix, 25% strand | — |
| B, D, F, H, J, L | Antitoxin RNA | rna | 36 | — | — |
Pockets
16 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 390 | 0.68 | 0.81 | 32 | empty |
| 2 | 463 | 0.66 | 0.79 | 46 | empty |
| 3 | 494 | 0.66 | 0.78 | 59 | empty |
| 4 | 351 | 0.65 | 0.81 | 34 | empty |
| 5 | 529 | 0.65 | 0.77 | 54 | empty |
Interfaces
27 interfaces between chains.
- G–L · 1289 Ų buried · 41 hydrogen bonds · protein-nucleic
- H–I · 1286 Ų buried · 38 hydrogen bonds · protein-nucleic
- D–E · 1281 Ų buried · 38 hydrogen bonds · protein-nucleic
- A–F · 1258 Ų buried · 42 hydrogen bonds · protein-nucleic
- J–K · 1244 Ų buried · 40 hydrogen bonds · protein-nucleic
Compared structures
- 7D8O · Crystal structure of E. coli ToxIN type III toxin-antitoxin complex · 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
- Elsewhere: RCSB PDB 7D8O · PDBe 7D8O
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