Cryo-EM structure of human TRPC6 in complex with agonist am-0883

Structure

electron microscopy · 1 distinct chain · 62% helix, 1% strand (DSSP).

Ligands and binding sites

• Y01 · Cholesterol hemisuccinate · ligand · 8 copies · chains A, B, D, C
• SBM · 2-[[(2~{S})-2-decanoyloxy-3-dodecanoyloxy-propoxy]-oxidanyl-phosphoryl]oxyethyl-trimethyl-azanium · ligand · 4 copies · chains A, B, D, C
• R0D · (5-chloro-1'H-spiro[indole-3,4'-piperidin]-1'-yl)[(2R)-2,3-dihydro-1,4-benzodioxin-2-yl]methanone · 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.

Interfaces

6 interfaces between chains.

• A–D · 4495 Ų buried · 29 hydrogen bonds · protein-protein
• A–B · 4490 Ų buried · 30 hydrogen bonds · protein-protein
• D–C · 4488 Ų buried · 30 hydrogen bonds · protein-protein
• B–C · 4486 Ų buried · 30 hydrogen bonds · protein-protein
• A–C · 64 Ų buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

• 6UZ8 · Cryo-EM structure of human TRPC6 in complex with agonist AM-0883 · the same entry in another collection · chain A against A, TM-score 1.00
• Q9Y210 · AlphaFold monomer V2.0 prediction for short transient receptor potential channel 6… · a predicted model of the same protein · chain A against A, TM-score 0.93

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 Q9Y210
• Elsewhere: RCSB PDB 6UZ8 · PDBe 6UZ8 · UniProt Q9Y210