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Estrogen receptor alpha ligand-binding domain in complex with a serm

Analyse Estrogen receptor alpha ligand-binding domain in complex with a serm in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2R6Y
Type: protein
Length: 453 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Estrogen receptor
UniProt: P03372
Ligands: LLC
Pockets: 8 · best druggability 0.77

Structure

x-ray diffraction · 2 distinct chains · 72% helix, 4% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Estrogen receptor	protein	232	71% helix, 4% strand	P03372
B	Estrogen receptor	protein	221	73% helix, 4% strand	P03372

Ligands and binding sites

LLC · [6-hydroxy-2-(4-hydroxyphenyl)-1-benzothien-3-yl][4-(2-pyrrolidin-1-ylethoxy)phenyl]methanone · ligand · 2 copies · chains A, B

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

Pockets

8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	236	0.77	0.90	26	LLC
2	236	0.75	0.88	29	LLC
3	88	0.62	0.89	17	empty
4	93	0.61	0.88	19	empty
5	175	0.46	0.75	28	empty

Interfaces

1 interface between chains.

A–B · 1578 Å² buried · 20 hydrogen bonds · protein-protein

Compared structures

2R6Y · Estrogen receptor alpha ligand-binding domain in complex with a SERM · the same entry in another collection · chain A against A, TM-score 1.00
P03372 · AlphaFold monomer V2.0 prediction for estrogen receptor (P03372) · a predicted model of the same protein · chain B against A, TM-score 0.94

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 P03372
Elsewhere: RCSB PDB 2R6Y · PDBe 2R6Y · UniProt P03372

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