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Crystal structure of human gsdmd
Analyse Crystal structure of human gsdmd in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6N9O
- Type
- protein
- Length
- 1,496 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gasdermin-D
- UniProt
- P57764
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gasdermin-D | protein | 371 | 41% helix, 11% strand | P57764 |
| B | Gasdermin-D | protein | 369 | 41% helix, 10% strand | P57764 |
| C | Gasdermin-D | protein | 379 | 40% helix, 15% strand | P57764 |
| D | Gasdermin-D | protein | 377 | 39% helix, 13% strand | P57764 |
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 | 714 | 0.84 | 0.88 | 80 | empty |
| 2 | 582 | 0.83 | 0.89 | 82 | empty |
| 3 | 578 | 0.82 | 0.88 | 70 | empty |
| 4 | 415 | 0.77 | 0.86 | 53 | empty |
| 5 | 249 | 0.75 | 0.88 | 44 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1024 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 957 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 747 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
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 P57764
- Elsewhere: RCSB PDB 6N9O · PDBe 6N9O · UniProt P57764
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