MolNFT v1 · #181309 · protein
Structure of squirrel TRPV1 in complex with rtx
7LQZ · Osm-9-like TRP channel 1: “Structure of squirrel TRPV1 in complex with rtx”. Electron microscopy, 3 ligands (POV, 6EU, NA), 20 pockets (best druggability 0.84). MolNFT v1 #181309 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 7LQZ
- Type
- protein
- Length
- 2,604 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Osm-9-like TRP channel 1
- UniProt
- I3LZN5
- Ligands
- POV, 6EU, NA
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 1 distinct chain · 50% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Osm-9-like TRP channel 1 | protein | 651 | 50% helix, 3% strand | I3LZN5 |
Ligands and binding sites
- POV · (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate · ligand · 32 copies · chains A, B, D, C
- 6EU · resiniferatoxin · ligand · 4 copies · chains A, B, C, D
- NA · Sodium ion · metal · 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 | 267 | 0.84 | 0.95 | 31 | empty |
| 2 | 570 | 0.76 | 0.83 | 56 | POV |
| 3 | 606 | 0.75 | 0.82 | 60 | POV |
| 4 | 606 | 0.75 | 0.81 | 61 | POV |
| 5 | 571 | 0.75 | 0.82 | 53 | POV |
Interfaces
6 interfaces between chains.
- C–D · 3237 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 3232 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 3231 Ų buried · 12 hydrogen bonds · protein-protein
- A–D · 3208 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 28 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7LQZ · Structure of squirrel TRPV1 in complex with RTX · the same entry in another collection · chain A against A, 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 I3LZN5
- Elsewhere: RCSB PDB 7LQZ · PDBe 7LQZ · UniProt I3LZN5
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