Research workbench
Cryo-EM structure of the activated NAIP2/NLRC4 inflammasome reveals nucleated polymerization
Analyse Cryo-EM structure of the activated NAIP2/NLRC4 inflammasome reveals nucleated… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3JBL
- Type
- protein
- Length
- 9,999 residues
- Chains
- 11
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nlr family card domain-containing protein 4
- UniProt
- Q3UP24
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 1 distinct chain · 39% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| K, A, B, C, D, E, F, G, H, I, J | Nlr family card domain-containing protein 4 | protein | 909 | 39% helix, 13% strand | Q3UP24 |
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 | 1057 | 0.84 | 0.85 | 122 | empty |
| 2 | 1078 | 0.84 | 0.84 | 129 | empty |
| 3 | 994 | 0.84 | 0.84 | 107 | empty |
| 4 | 973 | 0.83 | 0.84 | 115 | empty |
| 5 | 1033 | 0.83 | 0.84 | 123 | empty |
Interfaces
11 interfaces between chains.
- K–J · 1341 Ų buried · 12 hydrogen bonds · protein-protein
- D–E · 1335 Ų buried · 12 hydrogen bonds · protein-protein
- E–F · 1330 Ų buried · 12 hydrogen bonds · protein-protein
- F–G · 1329 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 1328 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 11 modified (phosphorylation).
Compared structures
- 3JBL · Cryo-EM Structure of the Activated NAIP2/NLRC4 Inflammasome Reveals Nucleated… · the same entry in another collection · chain J against J, TM-score 1.00
- Q3UP24 · AlphaFold monomer V2.0 prediction for nlr family card domain- containing protein 4… · a predicted model of the same protein · chain K against A, TM-score 0.69
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 Q3UP24
- Elsewhere: RCSB PDB 3JBL · PDBe 3JBL · UniProt Q3UP24
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