Binding mode analysis and enrichment studies on homology models of the human histamine H4 receptor.
Ligand-supported homology models of the human histamine H4 receptor (hH4R) were developed based on the crystal structure of bovine rhodopsin and different known H4 ligands (histamine, OUP-16, JNJ7777120). Enrichment tests were performed to analyze whether our hH4R models can select known actives from random decoys. The impact of receptor conformation and the effect of different sets of random decoys, docking methods (FlexX, FlexX-Pharm) and scoring functions (FlexX-Score, D-Score, PMF-Score, G-Score, ChemScore) were investigated. We found that two agonists (histamine and OUP-16) form complementary interactions with Asp94 (3.32), Glu182 (5.46) and Thr323 (6.55), whereas JNJ7777120 interacts with Asp94 (3.32) and Glu182 (5.46) only. These results suggest a role of Thr323 (6.55) in ligand binding and presumably also in receptor activation. The models optimized in the presence of an agonist (histamine) and an antagonist (JNJ7777120) were compared in more detail. We conclude that the ligand used in the model building process can significantly influence the efficacy of virtual screening.
Kiss
Róbert
R
Department of Pharmaceutical Chemistry, Semmelweis University, Hogyes Endre u. 9., H-1092, Budapest, Hungary.
Noszál
Béla
B
Rácz
Akos
A
Falus
András
A
Eros
Dániel
D
Keseru
György M
GM
D000595:Amino Acid Sequence; D000818:Animals; D001665:Binding Sites; D002417:Cattle; D018360:Crystallography, X-Ray; D006632:Histamine / Q000737:chemistry; D017442:Histamine Agonists / Q000737:chemistry; D006633:Histamine Antagonists / Q000737:chemistry; D006801:Humans; D007211:Indoles / Q000737:chemistry; D008958:Models, Molecular; D008969:Molecular Sequence Data; D010879:Piperazines / Q000737:chemistry; D011487:Protein Conformation; D043562:Receptors, G-Protein-Coupled / Q000737:chemistry*; D011968:Receptors, Histamine / Q000737:chemistry*; D000074040:Receptors, Histamine H4; D012243:Rhodopsin / Q000737:chemistry; D017386:Sequence Homology, Amino Acid
C418607:HRH4 protein, human; D017442:Histamine Agonists; D006633:Histamine Antagonists; D007211:Indoles; D010879:Piperazines; D043562:Receptors, G-Protein-Coupled; D011968:Receptors, Histamine; D000074040:Receptors, Histamine H4; C484309:1-((5-chloro-1H-indol-2-yl)carbonyl)-4-methylpiperazine; D006632:Histamine; D012243:Rhodopsin