MolNFT v1 · #185526 · protein
Cryo-EM structure of the NLRP3 pyd filament
7PZD · Nacht, lrr and pyd domains-containing protein 3: “Cryo-EM structure of the NLRP3 pyd filament”. Electron microscopy, 20 pockets (best druggability 0.74). MolNFT v1 #185526 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 7PZD
- Type
- protein
- Length
- 1,656 residues
- Chains
- 18
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nacht, lrr and pyd domains-containing protein 3
- UniProt
- Q96P20
- Pockets
- 20 · best druggability 0.74
Structure
electron microscopy · 1 distinct chain · 65% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X | Nacht, lrr and pyd domains-containing protein 3 | protein | 92 | 65% helix, 0% strand | Q96P20 |
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 | 876 | 0.74 | 0.79 | 73 | empty |
| 2 | 495 | 0.67 | 0.78 | 49 | empty |
| 3 | 447 | 0.67 | 0.79 | 50 | empty |
| 4 | 536 | 0.66 | 0.77 | 57 | empty |
| 5 | 455 | 0.66 | 0.78 | 38 | empty |
Interfaces
42 interfaces between chains.
- P–S · 542 Ų buried · 7 hydrogen bonds · protein-protein
- K–N · 542 Ų buried · 7 hydrogen bonds · protein-protein
- N–Q · 541 Ų buried · 7 hydrogen bonds · protein-protein
- S–V · 540 Ų buried · 7 hydrogen bonds · protein-protein
- Q–T · 540 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 7PZD · Cryo-EM structure of the NLRP3 PYD filament · the same entry in another collection · chain X against X, 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 Q96P20
- Elsewhere: RCSB PDB 7PZD · PDBe 7PZD · UniProt Q96P20
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