MolNFT v1 · #151572 · protein

Structure of the TRPML2 eld at pH 6.5

6HRR · Mucolipin-2: “Structure of the TRPML2 eld at pH 6.5”. X-ray diffraction, 2 ligands (K, CL), 4 pockets (best druggability 0.57). MolNFT v1 #151572 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6HRR
Type: protein
Length: 346 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mucolipin-2
UniProt: Q8IZK6
Ligands: K, CL
Pockets: 4 · best druggability 0.57

Structure

x-ray diffraction · 2 distinct chains · 25% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Mucolipin-2	protein	173	25% helix, 35% strand	Q8IZK6
B	Mucolipin-2	protein	173	25% helix, 39% strand	Q8IZK6

Ligands and binding sites

K · Potassium ion · metal · chains A
CL · Chloride ion · ion · 3 copies · chains A, B
GOL · Glycerol · additive · 11 copies · chains A, B
MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 3 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	368	0.57	0.76	56	MES, CL
2	117	0.46	0.79	21	empty
3	69	0.41	0.80	13	empty
4	82	0.38	0.77	19	empty

Interfaces

1 interface between chains.

A–B · 775 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

6HRR · Structure of the TRPML2 ELD at pH 6.5 · the same entry in another collection · chain A against A, TM-score 1.00
Q8IZK6 · AlphaFold monomer V2.0 prediction for mucolipin-2 (Q8IZK6) · 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 Q8IZK6
Elsewhere: RCSB PDB 6HRR · PDBe 6HRR · UniProt Q8IZK6

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