MolNFT v1 · #188872 · protein
Estrogen receptor alpha ligand binding domain in complex with a methylated lasofoxifene derivative that increases receptor resonance time in the nucleus of breast cancer cells
7UJM: “Estrogen receptor alpha ligand binding domain in complex with a methylated lasofoxifene derivative that…”. X-ray diffraction, 1 ligand (RL4), 15 pockets (best druggability 0.80). MolNFT v1 #188872 on GenesisL1: 3D structure, binding…
- PDB
- 7UJM
- Type
- protein
- Length
- 951 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Estrogen receptor
- UniProt
- P03372
- Ligands
- RL4
- Pockets
- 15 · best druggability 0.80
Structure
x-ray diffraction · 4 distinct chains · 66% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Estrogen receptor | protein | 238 | 67% helix, 4% strand | P03372 |
| A | Estrogen receptor | protein | 233 | 68% helix, 4% strand | P03372 |
| C | Estrogen receptor | protein | 242 | 66% helix, 4% strand | P03372 |
| D | Estrogen receptor | protein | 238 | 64% helix, 4% strand | P03372 |
Ligands and binding sites
- RL4 · (5R,6S)-5-(4-{2-[(2R)-2-methylpyrrolidin-1-yl]ethoxy}phenyl)-6-phenyl-5,6,7,8-tetrahydronaphthalen-2-ol · ligand · 4 copies · chains B, A, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 263 | 0.80 | 0.92 | 29 | RL4 |
| 2 | 281 | 0.80 | 0.91 | 36 | RL4 |
| 3 | 252 | 0.78 | 0.90 | 29 | RL4 |
| 4 | 254 | 0.77 | 0.89 | 30 | RL4 |
| 5 | 103 | 0.64 | 0.88 | 20 | empty |
Interfaces
3 interfaces between chains.
- B–A · 1593 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 1561 Ų buried · 24 hydrogen bonds · protein-protein
- B–C · 255 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 7UJM · Estrogen Receptor Alpha Ligand Binding Domain in Complex with a Methylated Lasofoxifene… · the same entry in another collection · chain D against D, TM-score 1.00
- P03372 · AlphaFold monomer V2.0 prediction for estrogen receptor (P03372) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 7UJM · PDBe 7UJM · UniProt P03372
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