MolNFT v1 · #154083 · protein

Structure of the mouse TRPC4 ion channel

6JZO · Short transient receptor potential channel 4: “Structure of the mouse TRPC4 ion channel”. Electron microscopy, 3 ligands (Y01, LPP, NA), 20 pockets (best druggability 0.86). MolNFT v1 #154083 on GenesisL1: 3D structure, binding…

PDB: 6JZO
Type: protein
Length: 2,657 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Short transient receptor potential channel 4
UniProt: Q9QUQ5
Ligands: Y01, LPP, NA
Pockets: 20 · best druggability 0.86

Structure

electron microscopy · 2 distinct chains · 63% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Short transient receptor potential channel 4	protein	668	63% helix, 1% strand	Q9QUQ5
B, C, D	Short transient receptor potential channel 4	protein	663	63% helix, 1% strand	Q9QUQ5

Ligands and binding sites

Y01 · Cholesterol hemisuccinate · ligand · 4 copies · chains A, D, B, C
LPP · 2-(hexadecanoyloxy)-1-[(phosphonooxy)methyl]ethyl hexadecanoate · ligand · 4 copies · chains A, D, B, C
NA · Sodium ion · metal · 4 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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	632	0.86	0.90	49	empty
2	1042	0.83	0.84	96	empty
3	1122	0.83	0.83	82	NA
4	1096	0.82	0.83	81	NA
5	1124	0.82	0.83	94	empty

Interfaces

6 interfaces between chains.

A–D · 5183 Å² buried · 32 hydrogen bonds · protein-protein
B–C · 5134 Å² buried · 32 hydrogen bonds · protein-protein
A–B · 5086 Å² buried · 36 hydrogen bonds · protein-protein
C–D · 4970 Å² buried · 37 hydrogen bonds · protein-protein
A–C · 111 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide, 1 covalent (disulfide, covalent ligand).

Compared structures

6JZO · Structure of the mouse TRPC4 ion channel · the same entry in another collection · chain A against A, TM-score 1.00
Q9QUQ5 · AlphaFold monomer V2.0 prediction for short transient receptor potential channel 4… · a predicted model of the same protein · chain B against A, TM-score 0.99

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 Q9QUQ5
Elsewhere: RCSB PDB 6JZO · PDBe 6JZO · UniProt Q9QUQ5

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