Research workbench
Cryo-EM structure of CARD8-CARD filament
Analyse Cryo-EM structure of CARD8-CARD filament in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6XKJ
- Type
- protein
- Length
- 1,360 residues
- Chains
- 16
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.54
- Source
- Homo sapiens
- Molecule
- Caspase recruitment domain-containing protein 8
- UniProt
- Q9Y2G2
- Pockets
- 13 · best druggability 0.81
Structure
electron microscopy · resolution 3.54 · 1 distinct chain · 78% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, A, B, D, E, F, G, H, I, J, K, L, M, N, O, P | Caspase recruitment domain-containing protein 8 | protein | 85 | 78% helix, 0% strand | Q9Y2G2 |
Pockets
13 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1076 | 0.81 | 0.82 | 105 | empty |
| 2 | 1042 | 0.81 | 0.82 | 100 | empty |
| 3 | 523 | 0.74 | 0.82 | 53 | empty |
| 4 | 503 | 0.74 | 0.83 | 60 | empty |
| 5 | 699 | 0.74 | 0.80 | 58 | empty |
Interfaces
40 interfaces between chains.
- G–K · 521 Ų buried · 2 hydrogen bonds · protein-protein
- B–F · 518 Ų buried · 3 hydrogen bonds · protein-protein
- L–P · 518 Ų buried · 2 hydrogen bonds · protein-protein
- F–J · 517 Ų buried · 2 hydrogen bonds · protein-protein
- J–N · 516 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 6XKJ · Cryo-EM structure of CARD8-card filament · the same entry in another collection · chain K against K, 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 Q9Y2G2
- Elsewhere: RCSB PDB 6XKJ · PDBe 6XKJ · UniProt Q9Y2G2
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