Research workbench
Mouse TRPV3 in MSP2N2 nanodiscs, closed state at 4 degrees celsius
Analyse Mouse TRPV3 in MSP2N2 nanodiscs, closed state at 4 degrees celsius in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MIJ
- Type
- protein
- Length
- 2,556 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transient receptor potential cation channel subfamily V member 3
- UniProt
- Q8K424
- Ligands
- POV, NA
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 1 distinct chain · 56% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Transient receptor potential cation channel subfamily V member 3 | protein | 639 | 56% helix, 5% strand | Q8K424 |
Ligands and binding sites
- POV · (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate · ligand · 36 copies · chains A, D, B, C
- NA · Sodium ion · metal · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 520 | 0.85 | 0.91 | 32 | NA |
| 2 | 1088 | 0.79 | 0.80 | 83 | POV |
| 3 | 1109 | 0.79 | 0.80 | 88 | POV |
| 4 | 1075 | 0.79 | 0.80 | 84 | POV |
| 5 | 1164 | 0.78 | 0.80 | 87 | POV |
Interfaces
6 interfaces between chains.
- A–B · 2896 Ų buried · 17 hydrogen bonds · protein-protein
- B–C · 2886 Ų buried · 16 hydrogen bonds · protein-protein
- A–D · 2882 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 2879 Ų buried · 17 hydrogen bonds · protein-protein
- B–D · 21 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7MIJ · Mouse TRPV3 in MSP2N2 nanodiscs, closed state at 4 degrees Celsius · the same entry in another collection · chain A against A, TM-score 1.00
- Q8K424 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain A against A, TM-score 0.95
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 Q8K424
- Elsewhere: RCSB PDB 7MIJ · PDBe 7MIJ · UniProt Q8K424
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