Research workbench
Structure of the ligand binding domain of the retinoic acid receptor beta
Analyse Structure of the ligand binding domain of the retinoic acid receptor beta in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XAP
- Type
- protein
- Length
- 232 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Retinoic acid receptor beta
- UniProt
- P10826
- Ligands
- TTB
- Pockets
- 4 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 70% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Retinoic acid receptor beta | protein | 232 | 70% helix, 4% strand | P10826 |
Ligands and binding sites
- TTB · 4-[(1E)-2-(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)prop-1-enyl]benzoic acid · ligand · chains A
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.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 239 | 0.83 | 0.95 | 36 | TTB |
| 2 | 131 | 0.48 | 0.79 | 20 | empty |
| 3 | 85 | 0.40 | 0.77 | 12 | empty |
| 4 | 87 | 0.34 | 0.74 | 17 | empty |
Compared structures
- 1XAP · Structure of the ligand binding domain of the Retinoic Acid Receptor beta · the same entry in another collection · chain A against A, TM-score 1.00
- P10826 · AlphaFold monomer V2.0 prediction for retinoic acid receptor beta (P10826) · a predicted model of the same protein · chain A 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 P10826
- Elsewhere: RCSB PDB 1XAP · PDBe 1XAP · UniProt P10826
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