| Literature DB >> 31817456 |
Haiyan Sun1, Linsheng Zhuo2, Huan Dong2, Wei Huang2, Nengfang She2.
Abstract
The 2,7-naphthyridone scaffold has been proposed as a novel lead structure of MET inhibitors by our group. To broaden the application of this new scaffold, a series of 8-amino-substituted 2-phenyl-2,7-naphthyridin-1(2H)-one derivatives were designed and synthesized. Preliminary biological screening resulted in the discovery of a new lead of c-Kit and VEGFR-2 kinase inhibitors. Compound 9k exhibited excellent c-Kit inhibitory activity, with an IC50 value of 8.5 nM, i.e., it is 38.8-fold more potent than compound 3 (IC50 of 329.6 nM). Moreover, the compounds 10l and 10r exhibited good VEGFR-2 inhibitory activity, with IC50 values of 56.5 and 31.7 nM, respectively, i.e., they are 5.0-8.8-fold more potent than compound 3 (IC50 of 279.9 nM). Molecular docking experiments provided further insight into the binding interactions of the new lead compounds with c-Kit and VEGFR-2 kinase. In this study, an 8-amino-substituted 2-phenyl-2,7-naphthyridin-1(2H)-one scaffold was identified as the new lead structure of c-Kit and VEGFR-2 kinase inhibitors.Entities:
Keywords: 2,7-naphthyridone; VEGFR-2; c-Kit; kinase inhibitor
Mesh:
Substances:
Year: 2019 PMID: 31817456 PMCID: PMC6943726 DOI: 10.3390/molecules24244461
Source DB: PubMed Journal: Molecules ISSN: 1420-3049 Impact factor: 4.411
Figure 1Examples of biologically active compounds containing a naphthyridine scaffold.
Figure 2The design of 8-amino-2-phenyl-2,7-naphthyridones.
Scheme 1Synthesis of target compounds 9a–k and 10a–s. Reaction conditions and reagents: (i) 1-fluoro-4-iodobenzene, CuI, DMEDA, K3PO4, dioxane, 100 °C; (ii) 2,4-pentanedione, piperidine, EtOH, 90 °C; (iii) DMF-DMA, DMF, 90 °C; (iv) H2SO4, 110 °C; (v) POCl3, 110 °C; (vi) Pd2(dba)3, dppp, t-BuONa, dioxane, 100 °C.
Inhibitory activity of 9a–k against MET, c-Kit, and VEGFR-2.
| No. | Block A | n | Inhibitory Activity, IC50, nM a | ||
|---|---|---|---|---|---|
| MET | c-Kit | VEGFR-2 | |||
|
| A-1 | 0 | >5000 | >5000 | >5000 |
|
| A-2 | 0 | >5000 | >5000 | >5000 |
|
| A-3 | 0 | >5000 | >5000 | 691.2 |
|
| A-4 | 0 | >5000 | >5000 | >5000 |
|
| A-5 | 0 | >5000 | >5000 | >5000 |
|
| A-1 | 1 | >5000 | >5000 | >5000 |
|
| A-6 | 1 | >5000 | 832.0 | 601.3 |
|
| A-4 | 1 | >5000 | >5000 | >5000 |
|
| A-7 | 1 | >5000 | >5000 | >5000 |
|
| A-8 | 1 | >5000 | >5000 | >5000 |
|
| A-9 | 1 | >5000 | 8.5 | 238.5 |
|
| 9.9 | 329.6 | 279.9 | ||
a In vitro kinase assays were performed with the indicated purified recombinant MET, c-Kit, or VEGFR-2 kinase domains (nM).
Inhibitory activity of 10a–s against MET, c-Kit, and VEGFR-2.
| No. | Block A | n | R1 | Inhibitory Activity, IC50, nM a | ||
|---|---|---|---|---|---|---|
| c-Met | c-Kit | VEGFR-2 | ||||
|
| A-4 | 0 | 4-F | >5000 | >5000 | >5000 |
|
| A-4 | 1 | 4-F | >5000 | >5000 | >5000 |
|
| A-6 | 1 | 4-F | >5000 | >5000 | >5000 |
|
| A-9 | 1 | 4-F | >5000 | 1609 | 208 |
|
| A-4 | 0 | H | >5000 | >5000 | >5000 |
|
| A-4 | 1 | H | >5000 | >5000 | >5000 |
|
| A-6 | 1 | H | >5000 | >5000 | >5000 |
|
| A-9 | 1 | H | >5000 | >5000 | 1031 |
|
| A-4 | 0 | 4-Cl | >5000 | >5000 | >5000 |
|
| A-4 | 1 | 4-Cl | >5000 | >5000 | >5000 |
|
| A-6 | 1 | 4-Cl | >5000 | >5000 | 263 |
|
| A-9 | 1 | 4-Cl | >5000 | 107 | 56.5 |
|
| A-4 | 0 | 4-OCF3 | >5000 | >5000 | >5000 |
|
| A-4 | 1 | 4-OCF3 | >5000 | >5000 | >5000 |
|
| A-6 | 1 | 4-OCF3 | >5000 | >5000 | 538 |
|
| A-7 | 1 | 4-OCF3 | >5000 | >5000 | >5000 |
|
| A-8 | 1 | 4-OCF3 | >5000 | >5000 | >5000 |
|
| A-9 | 1 | 4-OCF3 | >5000 | 169 | 31.7 |
|
| A-9 | 1 | 2,4-F2 | >5000 | >5000 | 887 |
|
| 9.9 | 329.6 | 279.9 | |||
a In vitro kinase assays were performed with the indicated purified recombinant MET, c-Kit, or VEGFR-2 kinase domains (nM).
Figure 3The proposed binding mode of: (A) 9g with c-Kit (green); (B) 9k with c-Kit (cyan); (C) 10r with c-Kit (magenta); (D) 9g with VEGFR-2 (green); (E) 9k with VEGFR-2 (cyan); (F) 10r with VEGFR-2 (magenta). The red dashed line represents a hydrogen bond. For clarity, only key residues are shown.
Individual energy components of the free energies of ligand with c-Kit and VEGFR-2.
| N.O. | Compound | ΔEele | ΔEvdw | ΔGnp | ΔGpol | ΔH | -TΔS | ΔGcal | IC50 (nM) |
|---|---|---|---|---|---|---|---|---|---|
| c-Kit (4U0I) |
| −18.60 | −52.83 | −5.49 | 42.12 | −34.81 | 14.67 | −20.13 | 832 |
|
| −21.78 | −60.09 | −5.91 | 44.37 | −43.42 | 13.19 | −30.23 | 8.5 | |
|
| −18.78 | −59.91 | −6.52 | 45.23 | −39.98 | 15.90 | −24.08 | 169 | |
| VEGFR-2 (3EFL) |
| −26.32 | −53.91 | −5.36 | 40.44 | −45.15 | 15.18 | −29.97 | 601 |
|
| −26.56 | −60.46 | −5.86 | 42.55 | −50.34 | 15.55 | −34.79 | 238.5 | |
|
| −27.82 | −64.08 | −6.37 | 43.36 | −54.92 | 16.38 | −38.54 | 31.7 |