Research workbench
Crystal structure of the clostridium perfringens netb toxin in the membrane inserted form
Analyse Crystal structure of the clostridium perfringens netb toxin in the membrane… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4H56
- Type
- protein
- Length
- 3,738 residues
- Chains
- 14
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Necrotic enteritis toxin B
- UniProt
- A8ULG6
- Pockets
- 20 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 3% helix, 60% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N | Necrotic enteritis toxin B | protein | 267 | 3% helix, 60% strand | A8ULG6 |
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 | 764 | 0.70 | 0.77 | 78 | empty |
| 2 | 776 | 0.70 | 0.76 | 75 | empty |
| 3 | 519 | 0.67 | 0.78 | 58 | empty |
| 4 | 378 | 0.63 | 0.78 | 47 | empty |
| 5 | 435 | 0.62 | 0.76 | 47 | empty |
Interfaces
17 interfaces between chains.
- K–L · 2293 Ų buried · 53 hydrogen bonds · protein-protein
- H–I · 2224 Ų buried · 53 hydrogen bonds · protein-protein
- I–J · 2221 Ų buried · 56 hydrogen bonds · protein-protein
- A–G · 2209 Ų buried · 50 hydrogen bonds · protein-protein
- J–K · 2208 Ų buried · 49 hydrogen bonds · protein-protein
Compared structures
- 4H56 · Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form · 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 A8ULG6
- Elsewhere: RCSB PDB 4H56 · PDBe 4H56 · UniProt A8ULG6
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