MolNFT v1 · #143401 · protein

Human apo-TRPML3 channel at pH 4.8

6AYG · Mucolipin-3: “Human apo-TRPML3 channel at pH 4.8”. Electron microscopy, 20 pockets (best druggability 0.88). MolNFT v1 #143401 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6AYG
Type: protein
Length: 1,756 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mucolipin-3
UniProt: Q8TDD5
Pockets: 20 · best druggability 0.88

Structure

electron microscopy · 1 distinct chain · 59% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Mucolipin-3	protein	439	59% helix, 13% strand	Q8TDD5

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	1150	0.88	0.89	161	empty
2	968	0.81	0.83	112	empty
3	898	0.80	0.82	100	empty
4	855	0.79	0.82	104	empty
5	1100	0.79	0.81	111	empty

Interfaces

6 interfaces between chains.

A–B · 2091 Å² buried · 10 hydrogen bonds · protein-protein
C–D · 2061 Å² buried · 7 hydrogen bonds · protein-protein
A–D · 2052 Å² buried · 8 hydrogen bonds · protein-protein
B–C · 2052 Å² buried · 8 hydrogen bonds · protein-protein
A–C · 34 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

6AYG · Human Apo-TRPML3 channel at pH 4.8 · the same entry in another collection · chain A against A, TM-score 1.00
Q8TDD5 · AlphaFold monomer V2.0 prediction for mucolipin-3 (Q8TDD5) · 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 Q8TDD5
Elsewhere: RCSB PDB 6AYG · PDBe 6AYG · UniProt Q8TDD5

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