MolNFT v1 · #27141 · protein

Structure of the ligand binding domain of the retinoic acid receptor beta

1XAP: “Structure of the ligand binding domain of the retinoic acid receptor beta”. X-ray diffraction, 1 ligand (TTB), 4 pockets (best druggability 0.83). MolNFT v1 #27141 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

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.

Pocket	Volume (Å³)	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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