| Literature DB >> 32588672 |
Serena Veschi1, Simone Carradori1, Laura De Lellis1, Rosalba Florio1, Davide Brocco1, Daniela Secci2, Paolo Guglielmi2, Mattia Spano2, Anatoly P Sobolev3, Alessandro Cama1.
Abstract
Pancreatic cancer (PC) is one of the deadliest carcinomas and in most cases, which are diagnosed with locally advanced or metastatic disease, current therapeutic options are highly unsatisfactory. Based on the anti-proliferative effects shown by nitroxoline, an old urinary antibacterial agent, we explored a large library of newly synthesised derivatives to unravel the importance of the OH moiety and pyridine ring of the parent compound. The new derivatives showed a valuable anti-proliferative effect and some displayed a greater effect as compared to nitroxoline against three pancreatic cancer cell lines with different genetic profiles. In particular, in silico pharmacokinetic data, clonogenicity assays and selectivity indexes of the most promising compounds showed several advantages for such derivatives, as compared to nitroxoline. Moreover, some of these novel compounds had stronger effects on cell viability and/or clonogenic capacity in PC cells as compared to erlotinib, a targeted agent approved for PC treatment.Entities:
Keywords: 4-nitro(thio)phenyl; Erlotinib; Nitroxoline derivatives; clonogenicity; drug repurposing; pancreatic cancer
Mesh:
Substances:
Year: 2020 PMID: 32588672 PMCID: PMC7470072 DOI: 10.1080/14756366.2020.1780228
Source DB: PubMed Journal: J Enzyme Inhib Med Chem ISSN: 1475-6366 Impact factor: 5.051
Figure 1.Synthesis of compounds 1–61.
Figure 2.Crystal structure of nitroxoline-based compound 16.
Figure 3.Screening of novel nitroxoline derivatives (1–61) on PC cell viability. Effects of novel derivatives on the viability of AsPC-1 (A), Capan-2 (B) and BxPC-3 (C) PC cell lines were assessed by MTT assays. The lead compound nitroxoline was included as a reference. MTT assays were performed by using compounds at 40 μM for 48 h and the histograms show the relative decrease of cell viability induced by treatments, as compared to nitroxoline. Data shown are the means ± SD of duplicate MTT experiments, each with quintuplicate determinations and are calculated as ratio relative to the lead compound nitroxoline (identified by a dashed line).
IC50 values for compounds 24, 33, 36, 40, 44 and nitroxoline in PC cell lines.
| Compound | IC50 (µM) | ||
|---|---|---|---|
| AsPC-1 | Capan-2 | BxPC-3 | |
| Nitroxoline | 26.8 | 16.9 | 41.2 |
| 26.1 | 40.2 | 47.1 | |
| 13.7 | 17.8 | 20.7 | |
| 17.7 | 21.6 | 24.5 | |
| 4.9 | 9.8 | 9.7 | |
| 20.1 | 27.1 | 39.5 | |
| Erlotinib | 22.8 | 30.5 | 10.9 |
IC50 values for Nitroxoline and Erlotinib were previously reported by us5.
Figure 4.Effect of compounds 33, 40 and nitroxoline on the clonogenic capacity of AsPC-1, Capan-2 and BxPC-3 PC cell lines. Representative plates of colony formation assays for the three PC cell lines exposed to tested compounds at 1 μM, 5 μM, or vehicle (control) are shown. Data shown in the histograms are the means ± SD of two independent experiments and are expressed as fold change relative to control (*p < 0.05; **p < 0.01; ***p < 0.001; ****p < 0.0001).
Selectivity index (SI) values for compound 40 and nitroxoline.
| Compound | Selectivity index (SI) | ||
|---|---|---|---|
| AsPC-1 | Capan-2 | BxPC-3 | |
| 4.71 | 2.36 | 2.38 | |
| Nitroxoline | 1.69 | 2.69 | 1.10 |
SI values are calculated for each compound as follows: SI = IC50 on normal fibroblast cells (HFF-1)/IC50 on cancer cell line. IC50 value of nitroxoline on HFF-1 is 45.4 μM (Figure S2).
In silico evaluated physicochemical properties of nitroxoline and the most potent compounds 24, 33, 36, 40, and 44.
| Compound | Nitroxoline | |||||
|---|---|---|---|---|---|---|
| Molecular weight (MW) | 190.16 | 359.17 | 305.29 | 316.26 | 349.17 | 353.29 |
| H-bond acceptors (HBA) | 4 | 4 | 5 | 6 | 4 | 7 |
| H-bond donators (HBD) | 1 | 0 | 0 | 0 | 0 | 0 |
| Consensus Log P | 1.17 | 3.22 | 2.37 | 3.21 | 3.67 | 1.83 |
| Lipinski violations | 0 | 0 | 0 | 0 | 0 | 0 |
| GI absorption | High | High | High | High | High | High |
| P-gp substrate | No | No | No | No | No | No |
| PAINS alerts | 0 | 0 | 0 | 0 | 0 | 0 |
Arithmetic mean of the values predicted by five in silico methods: XLOGP3, WLOGP, MLOGP, SILICOS-IT, iLOGP. Parameters range required to satisfy the Lipinski’s rule of five: MW ≤ 500 g/mol, HBD ≤ 5, HBA ≤ 10, log P ≤ 5.
Figure 5.Representation of the boiled-egg graph and bioavailability radar calculated by SwissADME web-tool.
In silico estimated physicochemical parameters of compound 40, used to device the boiled-egg graph and bioavailability radar.
| Cmpd | WLOGP | TPSA (Å2) | XLOGP3 | Log S (ESOL) | MW | Csp3 | N° of rotatable bonds |
|---|---|---|---|---|---|---|---|
| 4.88 | 67.94 | 5.07 | −5.45 | 349.17 | 0.06 | 4 |
Parameters used for the boiled-egg graph.
Parameters used for the bioavailability radar. Bioavailability radar parameters functional ranges: XLOGP3 between −0.7 and +5.0, MW between 150 and 500 g/mol, TPSA between 20 and 130Å2, log S not higher than 6, saturation: fraction of carbons in the sp3 hybridisation not less than 0.25, and flexibility: no more than 9 rotatable bonds.
Protein target prediction for nitroxoline.
| Target | Common name | Uniprot ID | ChEMBL ID | Target Class | Probability |
|---|---|---|---|---|---|
| Cyclooxygenase-2 | PTGS2 | P35354 | CHEMBL230 | Oxidoreductase | 1 |
| Methionine aminopeptidase 2 | METAP2 | P50579 | CHEMBL3922 | Protease | 1 |
| DNA excision repair protein ERCC-5 | ERCC5 | P28715 | CHEMBL4736 | Other nuclear protein | 0.03123 |
| Ribonuclease H1 | RNASEH1 | O60930 | CHEMBL5893 | Hydrolase | 0.03123 |
| Poly [ADP-ribose] polymerase-1 | PARP1 | P09874 | CHEMBL3105 | Transferase | 0.03123 |
| Proteasome Macropain subunit MB1 | PSMB5 | P28074 | CHEMBL4662 | Protease | 0.03123 |
| Indoleamine 2,3-dioxygenase | IDO1 | P14902 | CHEMBL4685 | Oxidoreductase | 0.03123 |
| Tryptophan 2,3-dioxygenase (by homology) | TDO2 | P48775 | CHEMBL2140 | Oxidoreductase | 0.03123 |
Protein target prediction for compound 40.
| Target | Common name | Uniprot ID | ChEMBL ID | Target Class | Probability |
|---|---|---|---|---|---|
| Cyclooxygenase-1 (by homology) | PTGS1 | P23219 | CHEMBL221 | Oxidoreductase | 0.10161 |
| TGF-beta receptor type I | TGFBR1 | P36897 | CHEMBL4439 | Kinase | 0.10161 |
| Macrophage migration inhibitory factor | MIF | P14174 | CHEMBL2085 | Isomerase | 0.10161 |
| Carbonic anhydrase XII | CA12 | O43570 | CHEMBL3242 | Lyase | 0.10161 |
| Phosphodiesterase 5A | PDE5A | O76074 | CHEMBL1827 | Phosphodiesterase | 0.10161 |
| ATP-binding cassette sub-family G member 2 | ABCG2 | Q9UNQ0 | CHEMBL5393 | Primary active transporter | 0.10161 |
| Arachidonate 15-lipoxygenase | ALOX15 | P16050 | CHEMBL2903 | Oxidoreductase | 0.10161 |
| Phosphatidylinositol-5-phosphate 4-kinase type-2 gamma | PIP4K2C | Q8TBX8 | CHEMBL1770034 | Kinase | 0.10161 |
| DNA topoisomerase II alpha | TOP2A | P11388 | CHEMBL1806 | Isomerase | 0.10161 |
| Vascular cell adhesion protein 1 | VCAM1 | P19320 | CHEMBL3735 | Adhesion | 0.10161 |