Research workbench
Human ppargamma ligand-binding domain in complex with serotonin
Analyse Human ppargamma ligand-binding domain in complex with serotonin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ADV
- Type
- protein
- Length
- 519 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peroxisome proliferator-activated receptor gamma
- UniProt
- P37231
- Ligands
- SRO
- Pockets
- 8 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 67% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peroxisome proliferator-activated receptor gamma | protein | 262 | 68% helix, 5% strand | P37231 |
| B | Peroxisome proliferator-activated receptor gamma | protein | 257 | 67% helix, 5% strand | P37231 |
Ligands and binding sites
- SRO · Serotonin · ligand · 3 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, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 743 | 0.81 | 0.84 | 69 | SRO |
| 2 | 466 | 0.76 | 0.84 | 53 | SRO |
| 3 | 133 | 0.59 | 0.85 | 24 | empty |
| 4 | 131 | 0.58 | 0.84 | 24 | empty |
| 5 | 248 | 0.53 | 0.76 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 930 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 3ADV · Human PPARgamma ligand-binding domain in complex with serotonin · 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 P37231
- Elsewhere: RCSB PDB 3ADV · PDBe 3ADV · UniProt P37231
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.