Research workbench
Structure of transient receptor potential (TRP) channel TRPV6 in the presence of gadolinium
Analyse Structure of transient receptor potential (TRP) channel TRPV6 in the presence… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5IWT
- Type
- protein
- Length
- 594 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transient receptor potential cation channel subfamily V member 6
- UniProt
- Q9R186
- Ligands
- DTB, GD
- Pockets
- 10 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 54% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transient receptor potential cation channel subfamily V member 6 | protein | 594 | 54% helix, 4% strand | Q9R186 |
Ligands and binding sites
- DTB · 6-(5-methyl-2-oxo-imidazolidin-4-yl)-hexanoic acid · ligand · chains A
- GD · Gadolinium atom · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 503 | 0.73 | 0.81 | 42 | empty |
| 2 | 213 | 0.64 | 0.83 | 31 | empty |
| 3 | 345 | 0.62 | 0.78 | 39 | empty |
| 4 | 196 | 0.54 | 0.78 | 25 | DTB |
| 5 | 131 | 0.51 | 0.80 | 21 | empty |
Compared structures
- 5IWT · Structure of Transient Receptor Potential (TRP) channel TRPV6 in the presence of… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9R186 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain A against A, TM-score 0.83
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 Q9R186
- Elsewhere: RCSB PDB 5IWT · PDBe 5IWT · UniProt Q9R186
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