MolNFT v1 · #103594 · protein
Human nuclear receptor liver receptor homologue-1, lrh-1, in its apo state bound to a fragment of human tif-2
4PLD · Nuclear receptor subfamily 5 group a member 2: “Human nuclear receptor liver receptor homologue-1, lrh-1, in its apo state bound to a fragment of human tif-2”. X-ray diffraction, 1 ligand (CPS), 3 pockets (best druggability 0.82).…
- PDB
- 4PLD
- Type
- protein
- Length
- 250 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclear receptor subfamily 5 group a member 2; Nuclear receptor coactivator 2
- UniProt
- O00482, Q15596
- Ligands
- CPS
- Pockets
- 3 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 73% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nuclear receptor subfamily 5 group a member 2 | protein | 239 | 73% helix, 3% strand | O00482 |
| B | Nuclear receptor coactivator 2 | protein | 11 | 73% helix, 0% strand | Q15596 |
Ligands and binding sites
- CPS · 3-[(3-cholamidopropyl)dimethylammonio]-1-propanesulfonate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 482 | 0.82 | 0.89 | 40 | empty |
| 2 | 231 | 0.67 | 0.84 | 35 | empty |
| 3 | 68 | 0.31 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 613 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 4PLD · Human Nuclear Receptor Liver Receptor Homologue-1, LRH-1, in its apo State Bound to a… · the same entry in another collection · chain A against A, TM-score 1.00
- O00482 · AlphaFold monomer V2.0 prediction for nuclear receptor subfamily 5 group a member 2… · a predicted model of the same protein · chain A against A, TM-score 0.97
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 O00482
- Every structure of UniProt Q15596
- Elsewhere: RCSB PDB 4PLD · PDBe 4PLD · UniProt O00482 · UniProt Q15596
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