Research workbench
Structural determinants of activation and biased agonism at the 5-HT2B receptor
Analyse Structural determinants of activation and biased agonism at the 5-HT2B receptor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DRX
- Type
- protein
- Length
- 368 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5HT2B receptor, bril chimera
- UniProt
- P41595, P0ABE7
- Ligands
- H8G, CLR
- Pockets
- 4 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 80% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 5HT2B receptor, bril chimera | protein | 368 | 80% helix, 0% strand | P41595, P0ABE7 |
Ligands and binding sites
- H8G · N,N-diethyl-N'-[(8alpha)-6-methyl-9,10-didehydroergolin-8-yl]urea · ligand · chains A
- CLR · Cholesterol · ligand · chains A
- OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 441 | 0.78 | 0.86 | 45 | H8G |
| 2 | 451 | 0.64 | 0.77 | 61 | OLC |
| 3 | 284 | 0.64 | 0.81 | 45 | empty |
| 4 | 56 | 0.29 | 0.74 | 9 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6DRX · Structural Determinants of Activation and Biased Agonism at the 5-HT2B Receptor · the same entry in another collection · chain A against A, TM-score 1.00
- P41595 · AlphaFold monomer V2.0 prediction for 5-hydroxytryptamine receptor 2B (P41595) · a predicted model of the same protein · chain A against A, TM-score 0.82
- P0ABE7 · AlphaFold monomer V2.0 prediction for soluble cytochrome B562 (P0ABE7) · a predicted model of the same protein · chain A against A, TM-score 0.23
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 P41595
- Every structure of UniProt P0ABE7
- Elsewhere: RCSB PDB 6DRX · PDBe 6DRX · UniProt P41595 · UniProt P0ABE7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.