MolNFT v1 · #180531 · protein
Cryo-EM structure of rtx-bound full-length TRPV1 in C1 state
7L2N · Transient receptor potential cation channel subfamily V…: “Cryo-EM structure of rtx-bound full-length TRPV1 in C1 state”. Electron microscopy, 1 ligand (6EU), 20 pockets (best druggability 0.86). MolNFT v1 #180531 on GenesisL1: 3D…
- PDB
- 7L2N
- Type
- protein
- Length
- 1,780 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transient receptor potential cation channel subfamily V member 1
- UniProt
- O35433
- Ligands
- 6EU
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 1 distinct chain · 61% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D, B | Transient receptor potential cation channel subfamily V member 1 | protein | 445 | 61% helix, 5% strand | O35433 |
Ligands and binding sites
- 6EU · resiniferatoxin · ligand · 4 copies · chains A, D, C, B
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 | 286 | 0.86 | 0.96 | 31 | empty |
| 2 | 222 | 0.74 | 0.89 | 22 | empty |
| 3 | 340 | 0.74 | 0.85 | 43 | empty |
| 4 | 456 | 0.72 | 0.82 | 48 | empty |
| 5 | 459 | 0.72 | 0.82 | 51 | empty |
Interfaces
6 interfaces between chains.
- A–D · 2237 Ų buried · 8 hydrogen bonds · protein-protein
- C–B · 2198 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 2159 Ų buried · 4 hydrogen bonds · protein-protein
- C–D · 2138 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 32 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7L2N · Cryo-EM structure of RTX-bound full-length TRPV1 in C1 state · the same entry in another collection · chain A against A, TM-score 1.00
- O35433 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain A against A, TM-score 0.94
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 O35433
- Elsewhere: RCSB PDB 7L2N · PDBe 7L2N · UniProt O35433
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