MolNFT v1 · #157935 · protein

Structure of chicken OTOP3 in nanodiscs

6NF6 · OTOPETRIN3: “Structure of chicken OTOP3 in nanodiscs”. Electron microscopy, 1 ligand (Y01), 10 pockets (best druggability 0.72). MolNFT v1 #157935 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6NF6
Type: protein
Length: 822 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: OTOPETRIN3
Ligands: Y01
Pockets: 10 · best druggability 0.72

Structure

electron microscopy · 1 distinct chain · 78% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	OTOPETRIN3	protein	411	78% helix, 0% strand	—

Ligands and binding sites

Y01 · Cholesterol hemisuccinate · ligand · 2 copies · chains A, B

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

Pockets

10 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	167	0.72	0.90	26	empty
2	153	0.72	0.90	26	empty
3	750	0.70	0.76	68	Y01
4	294	0.68	0.83	39	empty
5	260	0.68	0.84	33	empty

Interfaces

1 interface between chains.

A–B · 1446 Å² buried · 4 hydrogen bonds · protein-protein

Compared structures

6NF6 · Structure of chicken Otop3 in nanodiscs · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 6NF6 · PDBe 6NF6

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