MolNFT v1 · #48857 · protein

Crystal structure of the ligand binding domain of polyandrocarpa misakiensis rxr in tetramer in absence of ligand

2Q60 · Retinoid X receptor: “Crystal structure of the ligand binding domain of polyandrocarpa misakiensis rxr in tetramer in absence of…”. X-ray diffraction, 15 pockets (best druggability 0.79). MolNFT v1 #48857 on GenesisL1: 3D structure…

PDB: 2Q60
Type: protein
Length: 796 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Retinoid X receptor
UniProt: Q9UAF1
Pockets: 15 · best druggability 0.79

Structure

x-ray diffraction · 4 distinct chains · 61% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Retinoid X receptor	protein	198	61% helix, 1% strand	Q9UAF1
B	Retinoid X receptor	protein	198	65% helix, 3% strand	Q9UAF1
C	Retinoid X receptor	protein	203	58% helix, 0% strand	Q9UAF1
D	Retinoid X receptor	protein	197	61% helix, 2% strand	Q9UAF1

Pockets

15 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	685	0.79	0.83	66	empty
2	431	0.74	0.84	47	empty
3	408	0.66	0.79	39	empty
4	211	0.65	0.83	35	empty
5	233	0.64	0.82	27	empty

Interfaces

5 interfaces between chains.

C–D · 1098 Å² buried · 8 hydrogen bonds · protein-protein
A–B · 1077 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 873 Å² buried · 3 hydrogen bonds · protein-protein
B–D · 662 Å² buried · 4 hydrogen bonds · protein-protein
B–C · 72 Å² buried · 1 hydrogen bond · protein-protein

Compared structures

2Q60 · Crystal structure of the ligand binding domain of polyandrocarpa misakiensis rxr in… · 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
Every structure of UniProt Q9UAF1
Elsewhere: RCSB PDB 2Q60 · PDBe 2Q60 · UniProt Q9UAF1

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