| 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 deadliestEntities:
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 |