MolNFT v1 · #135042 · protein
Crystal structure of the er-alpha ligand-binding domain (Y537S) in complex with the estradiol derivative, (8S,9S,13S,14S,E)-17-((4- ISOPROPYLPHENYL)IMINO)-13-methyl-7,8,9,11,12,13,14,15,16,17- decahydro-6H-CYCLOPENTA[A]PHENANTHREN-3-ol
5TN1 · Estrogen receptor: “Crystal structure of the er-alpha ligand-binding domain (Y537S) in complex with the estradiol derivative…”. X-ray diffraction, 1 ligand (7FR), 7 pockets (best druggability 0.84). MolNFT v1 #135042 on GenesisL1…
- PDB
- 5TN1
- Type
- protein
- Length
- 510 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Estrogen receptor; Nuclear receptor coactivator 2
- UniProt
- P03372, Q15596
- Ligands
- 7FR
- Pockets
- 7 · best druggability 0.84
Structure
x-ray diffraction · 4 distinct chains · 68% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Estrogen receptor | protein | 245 | 71% helix, 4% strand | P03372 |
| B | Estrogen receptor | protein | 245 | 66% helix, 4% strand | P03372 |
| C | Nuclear receptor coactivator 2 | protein | 9 | 78% helix, 0% strand | Q15596 |
| D | Nuclear receptor coactivator 2 | protein | 11 | 64% helix, 0% strand | Q15596 |
Ligands and binding sites
- 7FR · (9beta,13alpha,17z)-17-{[4-(propan-2-yl) phenyl]imino}estra-1,3,5(10)-trien-3-ol · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 187 | 0.84 | 0.98 | 23 | 7FR |
| 2 | 166 | 0.83 | 0.98 | 21 | 7FR |
| 3 | 467 | 0.68 | 0.79 | 58 | empty |
| 4 | 95 | 0.63 | 0.89 | 19 | empty |
| 5 | 91 | 0.61 | 0.88 | 18 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1833 Ų buried · 30 hydrogen bonds · protein-protein
- B–D · 548 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 504 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- P03372 · AlphaFold monomer V2.0 prediction for estrogen receptor (P03372) · a predicted model of the same protein · chain B against A, TM-score 0.98
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
- Every structure of UniProt Q15596
- Elsewhere: RCSB PDB 5TN1 · PDBe 5TN1 · UniProt P03372 · UniProt Q15596
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