PDB Entry (6y1z)

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Visualizer: MichelaNGLo

PDB ID: 6y1z Resolution: 2.82 Å Exp. Method: X-RAY DIFFRACTION
PMID: 32726573 DOI: 10.1016/j.str.2020.07.004
Protein
Protein Name: 5-hydroxytryptamine receptor 3A
Protein Class: SIGNALING PROTEIN
Uniprot ID/ACC: P23979 (5HT3A_MOUSE) Organism: Mus musculus
Gene Symbol: Htr3a Gene ID: 15561
Pocket Descriptors
Volume: 105.088 Depth: 16.6455
Hydrophobicity: 0.767857 Drug Score: 0.115758
Pocket Similarity: Calculate
Ligand
Ligand Name:   (3~{a}~{S})-2-[(3~{S})-1-azabicyclo[2.2.2]octan-3-yl]-3~{a},4,5,6-tetrahydro-3~{H}-benzo[de]isoquinolin-1-one
HET ID:   O7B PubChem:   6337614
DrugBank:   DB00377 ChEMBL:   CHEMBL1189679
Canonical SMILES:   O=C1N(C[C@@H]2c3c1cccc3CCC2)[C@@H]1CN2CCC1CC2
Standard InChI:   InChI=1S/C19H24N2O/c22-19-16-6-2-4-14-3-1-5-15(18(14)16)11-21(19)17-12-20-9-7-13(17)8-10-20/h2,4,6,13,15,17H,1,3,5,7-12H2/t15-,17-/m1/s1
Molecular Formula:   C19H24N2O Mol. Weight:   296.40665 Heavy Atoms:   22
Charge:   0 Is Chiral:   True logP:   2.5323
HBD:   0 HBA:   3 TPSA:   23.55
#Bonds:   28 #Rotatable Bonds:   1 Shape Complexity:   0.6315789
Stereocomplexity:   0.21052632 Ligand Type:   Small Molecule
Binding Affinity
Database Name Value
BindingDB Kd : 0.3199999928474426 nM, Kd : 0.18000000715255737 nM, Ki : 0.029999999329447746 nM, Ki : 0.03999999910593033 nM, IC50 : 0.8299999833106995 nM, IC50 : 0.8799999952316284 nM