Research workbench
High-resolution structure of native toxin a from clostridioides difficile
Analyse High-resolution structure of native toxin a from clostridioides difficile in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7POG
- Type
- protein
- Length
- 2,382 residues
- Chains
- 1
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Toxin a
- UniProt
- M4NKU0
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 1 distinct chain · 27% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Toxin a | protein | 2382 | 27% helix, 26% strand | M4NKU0 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1000 | 0.86 | 0.86 | 111 | empty |
| 2 | 955 | 0.80 | 0.82 | 65 | empty |
| 3 | 149 | 0.79 | 0.96 | 34 | empty |
| 4 | 601 | 0.78 | 0.84 | 59 | empty |
| 5 | 420 | 0.73 | 0.83 | 40 | empty |
Compared structures
- 7POG · High-resolution structure of native toxin A from Clostridioides difficile · 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 M4NKU0
- Elsewhere: RCSB PDB 7POG · PDBe 7POG · UniProt M4NKU0
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