Research workbench
The cytotoxin make from vibrio cholerae
Analyse The cytotoxin make from vibrio cholerae in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6TAO
- Type
- protein
- Length
- 691 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Non-hemolytic enterotoxin lytic component L1
- UniProt
- A0A0F4FI88
- Ligands
- NI, SO4
- Pockets
- 6 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 75% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Non-hemolytic enterotoxin lytic component L1 | protein | 345 | 74% helix, 10% strand | A0A0F4FI88 |
| B | Non-hemolytic enterotoxin lytic component L1 | protein | 346 | 75% helix, 10% strand | A0A0F4FI88 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 424 | 0.67 | 0.79 | 54 | empty |
| 2 | 398 | 0.64 | 0.78 | 49 | empty |
| 3 | 63 | 0.54 | 0.88 | 17 | empty |
| 4 | 194 | 0.50 | 0.77 | 31 | empty |
| 5 | 138 | 0.44 | 0.76 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 1398 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 6TAO · The cytotoxin MakE from Vibrio cholerae · 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 A0A0F4FI88
- Elsewhere: RCSB PDB 6TAO · PDBe 6TAO · UniProt A0A0F4FI88
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