| Literature DB >> 28273884 |
Gastón Apablaza1, Luisa Montoya2, Cesar Morales-Verdejo3, Marco Mellado4,5, Mauricio Cuellar6, Carlos F Lagos7,8, Jorge Soto-Delgado9, Hery Chung10, Carlos David Pessoa-Mahana11, Jaime Mella12.
Abstract
The β₃ adrenergic receptor is raising as an important drug target for the treatment of pathologies such as diabetes, obesity, depression, and cardiac diseases among others. Several attempts to obtain selective and high affinity ligands have been made. Currently, Mirabegron is the only available drug on the market that targets this receptor approved for the treatment of overactive bladder. However, the FDA (Food and Drug Administration) in USA and the MHRA (Medicines and Healthcare products Regulatory Agency) in UK have made reports of potentially life-threatening side effects associated with the administration of Mirabegron, casting doubts on the continuity of this compound. Therefore, it is of utmost importance to gather information for the rational design and synthesis of new β₃ adrenergic ligands. Herein, we present the first combined 2D-QSAR (two-dimensional Quantitative Structure-Activity Relationship) and 3D-QSAR/CoMSIA (three-dimensional Quantitative Structure-Activity Relationship/Comparative Molecular Similarity Index Analysis) study on a series of potent β₃ adrenergic agonists of indole-alkylamine structure. We found a series of changes that can be made in the steric, hydrogen-bond donor and acceptor, lipophilicity and molar refractivity properties of the compounds to generate new promising molecules. Finally, based on our analysis, a summary and a regiospecific description of the requirements for improving β₃ adrenergic activity is given.Entities:
Keywords: CoMSIA; QSAR; beta-3 adrenergic receptor; diabetes; indole; mirabegron; obesity; vibegron
Mesh:
Substances:
Year: 2017 PMID: 28273884 PMCID: PMC6155312 DOI: 10.3390/molecules22030404
Source DB: PubMed Journal: Molecules ISSN: 1420-3049 Impact factor: 4.411
Figure 1Structure of selected β3-adrenergic agonists and compound 9, the most potent of the analyzed series.
Sequential search for the generation of the best 3D-QSAR. Models a.
| Model No. | Model | N | SEP | SEE | Field Contributions | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| S | E | H | D | A | ||||||||
| 1 | CoMSIA-S | 0.393 | 1 | 0.668 | 0.432 | 0.746 | 47.005 | 1 | ||||
| 2 | CoMSIA-E | 0.414 | 9 | 0.928 | 0.004 | 1.000 | 75,589.127 | 1 | ||||
| 3 | CoMSIA-H | 0.493 | 9 | 0.863 | 0.007 | 1.000 | 26,900.499 | 1 | ||||
| 4 | CoMSIA-D | 0.251 | 8 | 0.989 | 0.02 | 1.000 | 3582.73 | 1 | ||||
| 5 | CoMSIA-A | 0.493 | 3 | 0.652 | 0.288 | 0.901 | 42.56 | 1 | ||||
| 6 | CoMSIA-SE | 0.443 | 7 | 0.809 | 0.004 | 1.000 | 83,581.585 | 0.335 | 0.665 | |||
| 7 | CoMSIA-SEH | 0.439 | 2 | 0..663 | 0.203 | 0.948 | 135.576 | 0.193 | 0.432 | 0.375 | ||
| 8 | CoMSIA-SEHD | 0.437 | 10 | 0.973 | 0.000 | 1.000 | 5.92 × 106 | 0.143 | 0.308 | 0.251 | 0.298 | |
| 9 | CoMSIA-SEHA | 0.530 | 2 | 0.607 | 0.190 | 0.954 | 155.022 | 0.135 | 0.285 | 0.258 | 0.322 | |
| 10 | CoMSIA-SED | 0.448 | 4 | 0.707 | 0.037 | 0.998 | 2115.698 | 0.193 | 0.412 | 0.394 | ||
| 11 | CoMSIA-SEA | 0.552 | 2 | 0.593 | 0.209 | 0.944 | 126.755 | 0.185 | 0.38 | 0.434 | ||
| 12 | CoMSIA-SEDA | 0.581 | 7 | 0.702 | 0.007 | 1.000 | 33,768.991 | 0.129 | 0.28 | 0.296 | 0.294 | |
| 13 | CoMSIA-SH | 0.504 | 5 | 0.697 | 0.067 | 0.995 | 523.658 | 0.349 | 0.651 | |||
| 14 | CoMSIA-SD | 0.356 | 10 | 1.04 | 0.005 | 1.000 | 56,928.168 | 0.342 | 0.658 | |||
| 15 | CoMSIA-SA | 0.639 | 7 | 0.732 | 0.014 | 0.989 | 6334.553 | 0.387 | 0.613 | |||
| 16 | CoMSIA-SHD | 0.434 | 5 | 0.745 | 0.056 | 0.997 | 755.261 | 0.211 | 0.378 | 0.411 | ||
| 17 | CoMSIA-SHA | 0.579 | 7 | 0.703 | 0.021 | 1.000 | 3754.265 | 0.217 | 0.385 | 0.398 | ||
| 18 | CoMSIA-SDA | 0.599 | 10 | 0.821 | 0.001 | 1.000 | 823,177.397 | 0.185 | 0.397 | 0.418 | ||
| 19 | CoMSIA-SHDA | 0.594 | 6 | 0.659 | 0.021 | 1.000 | 4613.236 | 0.137 | 0.251 | 0.3 | 0.312 | |
| 20 | CoMSIA-EH | 0.421 | 2 | 0.674 | 0.216 | 0.941 | 118.677 | 0.533 | 0.467 | |||
| 21 | CoMSIA-ED | 0.404 | 4 | 0.734 | 0.072 | 0.994 | 556.137 | 0.516 | 0.484 | |||
| 22 | CoMSIA-EA | 0.517 | 2 | 0.615 | 0.24 | 0.926 | 94.322 | 0.46 | 0.54 | |||
| 23 | CoMSIA-EHD | 0.424 | 2 | 0.672 | 0.198 | 0.950 | 143.245 | 0.352 | 0.307 | 0.341 | ||
| 24 | CoMSIA-EHA | 0.512 | 2 | 0.619 | 0.205 | 0.947 | 132.798 | 0.328 | 0.299 | 0.373 | ||
| 25 | CoMSIA-EDA | 0.586 | 7 | 0.698 | 0.011 | 1.000 | 13,051.808 | 0.321 | 0.339 | 0.34 | ||
| 26 | CoMSIA-EHDA | 0.557 | 9 | 0.807 | 0.001 | 1.000 | 1.71 × 106 | 0.248 | 0.214 | 0.272 | 0.266 | |
| 27 | CoMSIA-HD | 0.408 | 2 | 0.681 | 0.248 | 0.921 | 87.997 | 0.487 | 0.513 | |||
| 28 | CoMSIA-HA | 0.514 | 2 | 0.618 | 0.239 | 0.927 | 95.784 | 0.45 | 0.55 | |||
| 29 | CoMSIA-HDA | 0.596 | 5 | 0.63 | 0.051 | 0.997 | 907.891 | 0.289 | 0.35 | 0.361 | ||
| 30 | CoMSIA-DA | 0.626 | 8 | 0.813 | 0.003 | 1.000 | 154,958.201 | 0.492 | 0.508 | |||
| 31 | CoMSIA-ALL | 0.557 | 8 | 0.761 | 0.001 | 1.000 | 1.44 × 106 | 0.103 | 0.225 | 0.192 | 0.242 | 0.239 |
a q = the square of the LOO cross-validation (CV) coefficient; N = the optimum number of components; SEP = standard error of prediction; SEE is the standard error of estimation of non CV analysis; r is the square of the non CV coefficient; F is the F-test value. S, E, H, D and A are the steric, electrostatic, hydrophobic, hydrogen-bond donor and hydrogen-bond acceptor contributions, respectively.
Experimental and predicted biological activity by the best CoMSIA models (Models 15 and 30) and the 2D-QSAR model.
| Mol. | Actual pEC50 (M) | CoMSIA-SA | CoMSIA-DA | 2D-QSAR | |||
|---|---|---|---|---|---|---|---|
| Predicted pE50 (M) | Residual | Predicted pE50 (M) | Residual | Predicted pE50 (M) | Residual | ||
| 1 t | 8.260 | 7.890 | 0.37 | 7.607 | 0.65 | 8.229 | 0.03 |
| 2 | 6.650 | 6.637 | 0.01 | 6.664 | 0.01 | 6.453 | 0.20 |
| 3 t | 7.670 | 7.229 | 0.44 | 7.686 | −0.02 | 7.798 | −0.13 |
| 4 | 9.051 | 9.061 | −0.01 | 9.041 | −0.01 | 9.232 | −0.18 |
| 5 | 9.252 | 9.241 | 0.01 | 9.254 | 0.00 | 9.141 | 0.11 |
| 6 | 9.108 | 9.107 | 0.00 | 9.117 | 0.01 | 9.068 | 0.04 |
| 7 | 8.879 | 8.887 | −0.01 | 8.885 | 0.01 | 9.114 | −0.23 |
| 8 | 8.759 | 8.757 | 0.00 | 8.773 | 0.01 | 8.567 | 0.19 |
| 9 | 9.678 | 9.668 | 0.00 | 9.673 | 0.00 | 9.385 | 0.29 |
| 10 | 9.222 | 9.225 | −0.01 | 9.207 | −0.01 | 8.951 | 0.27 |
| 11 t | 9.553 | 9.519 | 0.03 | 9.286 | 0.26 | 9.535 | 0.01 |
| 12 | 9.292 | 9.296 | −0.01 | 9.296 | 0.01 | 9.064 | 0.23 |
| 13 | 9.060 | 9.058 | 0.00 | 9.065 | 0.01 | 8.973 | 0.09 |
| 14 | 9.585 | 9.568 | 0.01 | 9.593 | 0.01 | 9.499 | 0.08 |
| 15 t | 9.187 | 9.198 | −0.01 | 9.101 | 0.09 | 9.023 | 0.17 |
| 16 | 8.921 | 8.917 | 0.00 | 8.913 | −0.01 | 9.077 | −0.16 |
| 17 t | 9.319 | 9.080 | 0.24 | 9.013 | 0.31 | 9.613 | −0.29 |
| 18 t | 9.260 | 8.830 | 0.43 | 9.101 | 0.16 | 9.527 | −0.27 |
| 19 | 6.790 | 6.790 | 0.00 | 6.790 | 0.00 | 7.173 | −0.38 |
| 20 | 8.921 | 8.899 | 0.02 | 8.931 | 0.01 | 8.842 | 0.08 |
| 21 | 7.440 | 7.900 | −0.46 | 7.603 | −0.16 | 7.740 | −0.30 |
| 22 | 8.000 | 8.019 | −0.02 | 7.975 | −0.03 | 7.455 | 0.54 |
| 23 | 8.530 | 8.532 | 0.00 | 8.532 | 0.00 | 8.295 | 0.23 |
| 24 | 8.350 | 8.356 | −0.01 | 8.341 | −0.01 | 8.666 | −0.32 |
| 25 | 9.000 | 9.010 | −0.01 | 8.989 | −0.01 | 9.026 | −0.03 |
t test set compounds.
Figure 2Graphics of Actual versus predicted pEC50 for models: 15 (left); and 30 (right).
Figure 3CoMSIA-SA model around compound 9, the most potent of the series. (A) Steric contour map. Green contours indicate regions where bulky groups improve activity, whereas yellow contours indicate regions were bulky groups decreases activity. (B) Hydrogen-bond acceptor contour map. Magenta contours indicate regions where hydrogen-bond acceptor groups increase activity, whereas red contours indicate regions where hydrogen-bond acceptor groups decrease activity.
Figure 4CoMSIA DA model around compound 9, the most potent of the series. (A) Donor contour map. Cyan contours indicate regions where hydrogen-bond donors increase activity, whereas purple contours indicate regions where hydrogen-bond donors decrease activity. (B) Acceptor contour map. Colors have the same meaning as explained in Figure 3B.
Figure 5Graphic of actual against predicted pEC50 for Equation (3).
Figure 6Structure–activity relationships derived from CoMSIA/Hansch studies.
Structure, biological activity and selectivity index of the studied compounds.
| Entry | Structure | EC50 (nM) β1 (β1/β3) β2 (β2/β3) β3 | pEC50 β3 (M) |
|---|---|---|---|
| 1 | 1.9 (0.4) 25 (4.6) 5.50 | 8.260 | |
| 2 | 47 (0.2) 330 (1.5) 223 | 6.650 | |
| 3 | 1700 (79.5) 290 (13.6) 21.38 | 7.670 | |
| 4 | 21 (23.6) 66 (74.2) 0.89 | 9.051 | |
| 5 | 6.6 (11.8) 29 (51.8) 0.56 | 9.252 | |
| 6 | 6.6 (8.5) 54 (69.2) 0.78 | 9.108 | |
| 7 | 6.8 (5.2) 19 (14.4) 1.32 | 8.879 | |
| 8 | 19 (10.9) 180 (103.4) 1.74 | 8.759 | |
| 9 | 18 (85.7) 44 (19.1) 0.21 | 9.678 | |
| 10 | 7.3 (12.2) 26 (43.3) 0.60 | 9.222 | |
| 11 | 5.6 (20) 20 (71.4) 0.28 | 9.553 | |
| 12 | 6.2 (12.2) 40 (78.4) 0.51 | 9.292 | |
| 13 | 3.1 (3.6) 72 (82.8) 0.87 | 9.060 | |
| 14 | 1.3 (5.0) 22 (84.6) 0.26 | 9.585 | |
| 15 | 1.2 (1.8) 49 (75.4) 0.65 | 9.187 | |
| 16 | 7.2 (6.0) 58 (48.3) 1.20 | 8.921 | |
| 17 | 13 (27.1) 26 (54.2) 0.48 | 9.319 | |
| 18 | 19 (34.5) 13 (23.6) 0.55 | 9.260 | |
| 19 | 69 (0.43) 120 (0.74) 162 | 6.790 | |
| 20 | 10 (8.3) 170 (141.7) 1.20 | 8.921 | |
| 21 | 36 (1.0) 160 (4.4) 36.31 | 7.440 | |
| 22 | 9.6 (1.0) 45 (4.5) 10.00 | 8.000 | |
| 23 | 7.6 (25.8) 44 (14.9) 2.95 | 8.530 | |
| 24 | 22 (4.9) 32 (7.2) 4.47 | 8.350 | |
| 25 | 44 (44.0) 53 (53.0) 1.00 | 9.000 |
The proposed structures of new molecules and their predicted pEC50 using the best model.
| Entry | Structure | Predicted pEC50 |
|---|---|---|
| QSAR_1 | 9.72 | |
| QSAR_2 | 9.60 | |
| QSAR_3 | 9.68 | |
| QSAR_4 | 9.30 | |
| QSAR_5 | 10.03 |