MolNFT v1 · #157933 · protein
Structure of zebrafish OTOP1 in nanodiscs
6NF4 · OTOPETRIN1: “Structure of zebrafish OTOP1 in nanodiscs”. Electron microscopy, 2 ligands (Y01, CLR), 17 pockets (best druggability 0.77). MolNFT v1 #157933 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6NF4
- Type
- protein
- Length
- 842 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- OTOPETRIN1
- Ligands
- Y01, CLR
- Pockets
- 17 · best druggability 0.77
Structure
electron microscopy · 1 distinct chain · 79% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | OTOPETRIN1 | protein | 421 | 79% helix, 0% strand | — |
Ligands and binding sites
- Y01 · Cholesterol hemisuccinate · ligand · 6 copies · chains A, B
- CLR · Cholesterol · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 82 | 0.77 | 0.98 | 21 | empty |
| 2 | 83 | 0.77 | 0.98 | 21 | empty |
| 3 | 1116 | 0.72 | 0.75 | 92 | Y01 |
| 4 | 432 | 0.71 | 0.81 | 53 | CLR |
| 5 | 474 | 0.69 | 0.80 | 53 | CLR |
Interfaces
1 interface between chains.
- A–B · 2181 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 6NF4 · Structure of zebrafish Otop1 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 6NF4 · PDBe 6NF4
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