1
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Ferraro G, Lyčková T, Massai L, Štarha P, Messori L, Merlino A. Picoplatin binding to proteins: X-ray structures and mass spectrometry data on the adducts with lysozyme and ribonuclease A. Dalton Trans 2024; 53:8535-8540. [PMID: 38727007 DOI: 10.1039/d4dt00773e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/22/2024]
Abstract
The reactivity of the anticancer drug picoplatin (cis-amminedichlorido(2-methylpyridine)platinum(II) complex) with the model proteins hen egg white lysozyme (HEWL) and bovine pancreatic ribonuclease (RNase A) was investigated by electrospray ionisation mass spectrometry (ESI MS) and X-ray crystallography. The data were compared with those previously obtained for the adducts of these proteins with cisplatin, carboplatin and oxaliplatin under the same experimental conditions. ESI-MS data show binding of Pt to both proteins, with fragments retaining the 2-methylpyridine ligand and, possibly, a chloride ion. X-ray crystallography identifies different binding sites on the two proteins, highlighting a different behaviour of picoplatin in the absence or presence of dimethyl sulfoxide (DMSO). Metal-containing fragments bind to HEWL close to the side chains of His15, Asp18, Asp119 and both Lys1 and Glu7, whereas they bind to RNase A on the side chain of His12, Met29, His48, Asp53, Met79, His105 and His119. The data suggest that the presence of DMSO favours the loss of 2-methylpyridine and alters the ability of the Pt compound to bind to the two proteins. With both proteins, picoplatin appears to behave similarly to cisplatin and carboplatin when dissolved in DMSO, whereas it behaves more like oxaliplatin in the absence of the coordinating solvent. This study provides important insights into the pharmacological profile of picoplatin and supports the conclusion that coordinating solvents should not be used to evaluate the biological activities of Pt-based drugs.
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Affiliation(s)
- Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II, Complesso universitario di Monte Sant'Angelo, via Cinthia, 21, 80126, Naples, Italy.
| | - Tereza Lyčková
- Department of Inorganic Chemistry, Faculty of Science, Palacký University Olomouc, 17. listopadu 12, 771 46 Olomouc, Czech Republic
| | - Lara Massai
- Department of Chemistry "Ugo Schiff", University of Florence, via della Lastruccia, 3-13, 50019, Sesto Fiorentino, Florence, Italy
| | - Pavel Štarha
- Department of Inorganic Chemistry, Faculty of Science, Palacký University Olomouc, 17. listopadu 12, 771 46 Olomouc, Czech Republic
| | - Luigi Messori
- Department of Chemistry "Ugo Schiff", University of Florence, via della Lastruccia, 3-13, 50019, Sesto Fiorentino, Florence, Italy
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, Complesso universitario di Monte Sant'Angelo, via Cinthia, 21, 80126, Naples, Italy.
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2
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Marzo T, Ferraro G, Cucci LM, Pratesi A, Hansson Ö, Satriano C, Merlino A, La Mendola D. Oxaliplatin inhibits angiogenin proliferative and cell migration effects in prostate cancer cells. J Inorg Biochem 2021; 226:111657. [PMID: 34784565 DOI: 10.1016/j.jinorgbio.2021.111657] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2021] [Revised: 10/08/2021] [Accepted: 10/31/2021] [Indexed: 01/11/2023]
Abstract
Angiogenin (Ang) is a potent angiogenic protein that is overexpressed in many types of cancer at concentration values correlated to the tumor aggressiveness. Here, by means of an integrated multi-technique approach based on crystallographic, spectrometric and spectroscopic analyses, we demonstrate that the anti-cancer drug oxaliplatin efficiently binds angiogenin. Microscopy cellular studies, carried out on the prostate cancer cell (PC-3) line , show that oxaliplatin inhibits the angiogenin prompting effect on cell proliferation and migration, which are typical features of angiogenesis process. Overall, our findings point to angiogenin as a possible target of oxaliplatin, thus suggesting a potential novel mechanism for the antineoplastic activity of this platinum drug and opening the avenue to novel approaches in the combined anti-cancer anti-angiogenic therapy.
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Affiliation(s)
- Tiziano Marzo
- Department of Pharmacy, University of Pisa, Via Bonanno Pisano 6, 56126 Pisa, Italy
| | - Giarita Ferraro
- Department of Chemistry 'Ugo Schiff', University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino, FI, Italy
| | - Lorena Maria Cucci
- Department of Chemical Sciences, University of Catania, Viale A. Doria 6, 95125 Catania, Italy
| | - Alessandro Pratesi
- Department of Chemistry and Industrial Chemistry, University of Pisa, Via G. Moruzzi 13, 56124 Pisa, Italy
| | - Örjan Hansson
- Department of Chemistry and Chemical Biology, University of Gothenburg, Medicinaregatan 9C, PO Box 462, SE-40530 Göteborg, Sweden
| | - Cristina Satriano
- Department of Chemical Sciences, University of Catania, Viale A. Doria 6, 95125 Catania, Italy.
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, Via Cintia 21, I-80126 Napoli, Italy.
| | - Diego La Mendola
- Department of Pharmacy, University of Pisa, Via Bonanno Pisano 6, 56126 Pisa, Italy.
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3
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Abstract
Recent advances in structural studies unveiling the basis of the metal compounds/protein recognition process are discussed.
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Affiliation(s)
- Antonello Merlino
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant’Angelo
- Napoli
- Italy
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4
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Ferraro G, Cirri D, Marzo T, Pratesi A, Messori L, Merlino A. The first step of arsenoplatin-1 aggregation in solution unveiled by solving the crystal structure of its protein adduct. Dalton Trans 2020; 50:68-71. [PMID: 33320144 DOI: 10.1039/d0dt04068a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Arsenoplatin-1 (AP-1) is an innovative dual-action anticancer agent that contains a platinum(ii) center coordinated to an arsenous acid moiety. We found that AP-1 spontaneously aggregates in aqueous solutions generating oligomeric species of increasing length. Afterward, we succeeded in solving the crystal structure of the adduct formed between the model protein lysozyme and an early AP-1 oligomer that turned out to be a trimer. Remarkably, this crystal structure traps an early stage of AP-1 aggregation offering detailed insight into the molecular process of the oligomer's growth.
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Affiliation(s)
- Giarita Ferraro
- Department of Chemistry, University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino, FI, Italy.
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5
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Balasco N, Ferraro G, Loreto D, Iacobucci I, Monti M, Merlino A. Cisplatin binding to β-lactoglobulin: a structural study. Dalton Trans 2020; 49:12450-12457. [PMID: 32852026 DOI: 10.1039/d0dt02582h] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The first structural study on the interaction of β-lactoglobulin with the anticancer compound cisplatin is here reported by combining spectroscopic, crystallographic and mass spectrometry techniques.
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Affiliation(s)
- Nicole Balasco
- Institute of Biostructures and Bioimaging
- CNR
- 80134 Napoli
- Italy
| | - Giarita Ferraro
- Department of Chemistry “Ugo Schiff”
- University of Florence
- Sesto Fiorentino
- Italy
| | - Domenico Loreto
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- Napoli
- Italy
| | - Ilaria Iacobucci
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- Napoli
- Italy
| | - Maria Monti
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- Napoli
- Italy
| | - Antonello Merlino
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- Napoli
- Italy
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6
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Monti DM, Ferraro G, Merlino A. Ferritin-based anticancer metallodrug delivery: Crystallographic, analytical and cytotoxicity studies. NANOMEDICINE-NANOTECHNOLOGY BIOLOGY AND MEDICINE 2019; 20:101997. [PMID: 31028889 DOI: 10.1016/j.nano.2019.04.001] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2019] [Revised: 02/28/2019] [Accepted: 04/03/2019] [Indexed: 12/27/2022]
Abstract
The encapsulation of anticancer metal-based drugs within a protein nanocage represents a valuable strategy to improve the efficacy and selectivity of these compounds towards cancer cells. The preparation, characterization of the in vitro cytotoxicity and X-ray structures of several ferritin-metallodrug nanocomposites (mainly containing platinum-, ruthenium- and gold-based anticancer agents) are here reviewed. The molecular mechanisms of action of these Ft-metallodrug adducts are discussed and future directions in the field are outlined.
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Affiliation(s)
- Dara Maria Monti
- Department of Chemical Sciences, University of Naples Federico II, Napoli, Italy
| | - Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II, Napoli, Italy
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, Napoli, Italy.
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7
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Florio D, Malfitano AM, Di Somma S, Mügge C, Weigand W, Ferraro G, Iacobucci I, Monti M, Morelli G, Merlino A, Marasco D. Platinum(II) O, S Complexes Inhibit the Aggregation of Amyloid Model Systems. Int J Mol Sci 2019; 20:ijms20040829. [PMID: 30769904 PMCID: PMC6413125 DOI: 10.3390/ijms20040829] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2019] [Revised: 02/08/2019] [Accepted: 02/13/2019] [Indexed: 02/07/2023] Open
Abstract
Platinum(II) complexes with different cinnamic acid derivatives as ligands were investigated for their ability to inhibit the aggregation process of amyloid systems derived from Aβ, Yeast Prion Protein Sup35p and the C-terminal domain of nucleophosmin 1. Thioflavin T binding assays and circular dichroism data indicate that these compounds strongly inhibit the aggregation of investigated peptides exhibiting IC50 values in the micromolar range. MS analysis confirms the formation of adducts between peptides and Pt(II) complexes that are also able to reduce amyloid cytotoxicity in human SH-SY5Y neuroblastoma cells. Overall data suggests that bidentate ligands based on β-hydroxy dithiocinnamic esters can be used to develop platinum or platinoid compounds with anti-amyloid aggregation properties.
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Affiliation(s)
- Daniele Florio
- Department of Pharmacy, University of Naples Federico II, Napoli 80134, Italy.
| | - Anna Maria Malfitano
- Department of Translational Medical Science, University of Naples Federico II, Napoli 80131, Italy.
| | - Sarah Di Somma
- Department of Translational Medical Science, University of Naples Federico II, Napoli 80131, Italy.
| | - Carolin Mügge
- Institute for Inorganic and Analytical Chemistry, University of Jena, Jena 07743, Germany.
- Department of Biology, Ruhr-University Bochum, Bochum 44801, Germany.
| | - Wolfgang Weigand
- Institute for Inorganic and Analytical Chemistry, University of Jena, Jena 07743, Germany.
| | - Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II, Napoli 80126, Italy.
| | - Ilaria Iacobucci
- Department of Chemical Sciences, University of Naples Federico II, Napoli 80126, Italy.
- CEINGE Biotecnologie Avanzate s.c.a r.l., University of Naples Federico II, Napoli 80145, Italy.
| | - Maria Monti
- Department of Chemical Sciences, University of Naples Federico II, Napoli 80126, Italy.
- CEINGE Biotecnologie Avanzate s.c.a r.l., University of Naples Federico II, Napoli 80145, Italy.
| | - Giancarlo Morelli
- Department of Pharmacy, University of Naples Federico II, Napoli 80134, Italy.
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, Napoli 80126, Italy.
| | - Daniela Marasco
- Department of Pharmacy, University of Naples Federico II, Napoli 80134, Italy.
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8
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Reaction with Proteins of a Five-Coordinate Platinum(II) Compound. Int J Mol Sci 2019; 20:ijms20030520. [PMID: 30691130 PMCID: PMC6387405 DOI: 10.3390/ijms20030520] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2018] [Revised: 01/21/2019] [Accepted: 01/23/2019] [Indexed: 02/08/2023] Open
Abstract
Stable five-coordinate Pt(II) complexes have been highlighted as a promising and original platform for the development of new cytotoxic drugs. Their interaction with proteins has been scarcely studied. Here, the reactivity of the five-coordinate Pt(II) compound [Pt(I)(Me) (dmphen)(olefin)] (Me = methyl, dmphen = 2,9-dimethyl-1,10-phenanthroline, olefin = dimethylfumarate) with the model proteins hen egg white lysozyme (HEWL) and bovine pancreatic ribonuclease (RNase A) has been investigated by X-ray crystallography and electrospray ionization mass spectrometry. The X-ray structures of the adducts of RNase A and HEWL with [Pt(I)(Me)(dmphen)(olefin)] are not of very high quality, but overall data indicate that, upon reaction with RNase A, the compound coordinates the side chain of His105 upon releasing the iodide ligand, but retains the pentacoordination. On the contrary, upon reaction with HEWL, the trigonal bi-pyramidal Pt geometry is lost, the iodide and the olefin ligands are released, and the metal center coordinates the side chain of His15 probably adopting a nearly square-planar geometry. This work underlines the importance of the combined use of crystallographic and mass spectrometry techniques to characterize, in detail, the protein–metallodrug recognition process. Our findings also suggest that five-coordinate Pt(II) complexes can act either retaining their uncommon structure or functioning as prodrugs, i.e., releasing square-planar platinum complexes as bioactive species.
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9
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Ren G, Qin Z, Fan A, Wang Y, Tan Y, Lu Y, Li N, Chen X, Zhao D. A novel and fully validated hydrophilic interaction liquid chromatography with tandem mass spectrometry method for the determination of intact carboplatin in human plasma. SEPARATION SCIENCE PLUS 2018. [DOI: 10.1002/sscp.201800011] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Guanghui Ren
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Zhiying Qin
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Ali Fan
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Yonghan Wang
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Yanan Tan
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Yang Lu
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Ning Li
- Center of Drug Metabolism and Pharmacokinetics; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Xijng Chen
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
| | - Di Zhao
- Clinical Pharmacokinetics Laboratory; China Pharmaceutical University; Nanjing Jiangsu Province China
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10
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Messori L, Merlino A. Protein metalation by metal-based drugs: X-ray crystallography and mass spectrometry studies. Chem Commun (Camb) 2018; 53:11622-11633. [PMID: 29019481 DOI: 10.1039/c7cc06442j] [Citation(s) in RCA: 52] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The combined use of X-ray crystallography and mass spectrometry represents a valuable strategy to investigate and characterize protein metalation induced by anticancer metal-based drugs. Here, we summarize a series of significant results recently obtained in our laboratories upon the examination of the structures of several adducts of proteins with representative metallodrugs (mostly containing ruthenium, gold and platinum). The general mechanisms of protein metalation that emerge from a careful comparative analysis of these structures are illustrated and their mechanistic implications are discussed. Possible directions for future work in the field are delineated.
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Affiliation(s)
- L Messori
- Department of Chemistry, University of Florence, Italy.
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11
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Hildebrandt J, Häfner N, Görls H, Kritsch D, Ferraro G, Dürst M, Runnebaum IB, Merlino A, Weigand W. Platinum(ii) O,S complexes as potential metallodrugs against Cisplatin resistance. Dalton Trans 2018; 45:18876-18891. [PMID: 27897281 DOI: 10.1039/c6dt01388k] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
We report on platinum(ii) complexes with different cinnamic acid derivatives as ligands with cytotoxic activity against Cisplatin resistant ovarian cancer cell line subcultures of SKOV3 and A2780. A typical mechanism of action for platinum(ii) complexes as Cisplatin itself is binding to the DNA and inducing double-strand breaks. We examined the biological behavior of these potential drugs with 9-methylguanine using NMR spectroscopic methods and their DNA damage potential including γH2AX-foci analyses. X-ray diffraction methods have been used to elucidate the molecular structures of the platinum(ii) complexes. Interactions with the model protein lysozyme have been evaluated by different techniques including UV-Vis absorption spectroscopy, fluorescence and X-ray crystallography.
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Affiliation(s)
- Jana Hildebrandt
- Institut für Anorganische und Analytische Chemie Friedrich-Schiller-Universität Jena Humboldtstraße 8, 07743 Jena, Germany.
| | - Norman Häfner
- Department of Gynecology, Jena University Hospital - Friedrich Schiller University Jena, Germany
| | - Helmar Görls
- Institut für Anorganische und Analytische Chemie Friedrich-Schiller-Universität Jena Humboldtstraße 8, 07743 Jena, Germany.
| | - Daniel Kritsch
- Department of Gynecology, Jena University Hospital - Friedrich Schiller University Jena, Germany
| | - Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant' Angelo, Via Cintia, I-80126, Napoli, Italy
| | - Matthias Dürst
- Department of Gynecology, Jena University Hospital - Friedrich Schiller University Jena, Germany
| | - Ingo B Runnebaum
- Department of Gynecology, Jena University Hospital - Friedrich Schiller University Jena, Germany
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant' Angelo, Via Cintia, I-80126, Napoli, Italy and CNR Institute of Biostructures and Bioimages, Via Mezzocannone 16, I-80100, Napoli, Italy.
| | - Wolfgang Weigand
- Institut für Anorganische und Analytische Chemie Friedrich-Schiller-Universität Jena Humboldtstraße 8, 07743 Jena, Germany.
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12
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Marzo T, Navas F, Cirri D, Merlino A, Ferraro G, Messori L, Quiroga AG. Reactions of a tetranuclear Pt-thiosemicarbazone complex with model proteins. J Inorg Biochem 2018; 181:11-17. [PMID: 29353085 DOI: 10.1016/j.jinorgbio.2018.01.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2017] [Revised: 12/30/2017] [Accepted: 01/07/2018] [Indexed: 01/21/2023]
Abstract
The tetranuclear Pt complex (PtL)4 (where L2- is the anion derived from para-isopropyl thiosemicarbazone) was first described in A.G. Quiroga et al., J. Med. Chem. 41, 1998, 1399-1408. (PtL)4 manifests antiproliferative properties toward various cancer cell lines being a promising anticancer drug candidate. Yet, details of its reactivity with biomolecules have not been elucidated. To this end, we investigated the reactions of (PtL)4 with a few model proteins, i.e. bovine pancreatic ribonuclease (RNase A), cytochrome c (Cyt c) and hen egg white lysozyme (Lysozyme), through electrospray ionization mass spectrometry and other biophysical methods. A rich reactivity of (PtL)4 with the above-mentioned model proteins is observed, leading to the formation of numerous metallodrug-protein adducts. The tetranuclear complex breaks down and various fragments bind proteins up to high metal/protein ratios; this typically results into very complicated mass spectral patterns. However, some of the main mass peaks could be assigned in the case of the Lysozyme adduct. In addition, crystallographic data were obtained for the (PtL)4/Lysozyme and (PtL)4/RNase A adducts pointing at His side chains as the primary binding sites for monometallic Pt fragments. Notably, a few selected features of the interactions observed in the (PtL)4/protein adducts were reproduced by reacting (PtL)4 with a small molecule, i.e. N-methylimidazole. In conclusion, the present study confirms the prodrug nature of the tetraplatinum complex, clarifies one possible pathway for its activation through cluster disassembly and allows initial identification of adducts formed with a representative protein.
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Affiliation(s)
- Tiziano Marzo
- Department of Chemistry and Industrial Chemistry (DCCI), University of Pisa, Via Moruzzi, 13, 56124 Pisa, Italy; Laboratory of Metals in Medicine (MetMed), Department of Chemistry "U. Schiff", University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino, Italy
| | - Francisco Navas
- IAdChem (Institute for Advanced Research in Chemical Science) and Department of Inorganic Chemistry, Universidad Autónoma de Madrid, 28049, Spain
| | - Damiano Cirri
- Laboratory of Metals in Medicine (MetMed), Department of Chemistry "U. Schiff", University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino, Italy
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant'Angelo, via Cintia, I-80126 Napoli, Italy
| | - Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant'Angelo, via Cintia, I-80126 Napoli, Italy
| | - Luigi Messori
- Laboratory of Metals in Medicine (MetMed), Department of Chemistry "U. Schiff", University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino, Italy.
| | - Adoracion G Quiroga
- IAdChem (Institute for Advanced Research in Chemical Science) and Department of Inorganic Chemistry, Universidad Autónoma de Madrid, 28049, Spain.
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13
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Ferraro G, Mansour AM, Merlino A. Exploring the interactions between model proteins and Pd(ii) or Pt(ii) compounds bearing charged N,N-pyridylbenzimidazole bidentate ligands by X-ray crystallography. Dalton Trans 2018; 47:10130-10138. [DOI: 10.1039/c8dt01663a] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
X-ray structure of the adducts formed between lysozyme and Pd(ii) and Pt(ii) compounds bearing N,N-pyridylbenzimidazole derivatives with an alkylated sulfonate or phosphonium side chain are reported.
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Affiliation(s)
- Giarita Ferraro
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- 80126 Napoli
- Italy
| | - Ahmed M. Mansour
- Department of Chemistry
- Faculty of Science
- Cairo University
- Giza
- Egypt
| | - Antonello Merlino
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- 80126 Napoli
- Italy
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14
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Ferraro G, Marzo T, Infrasca T, Cilibrizzi A, Vilar R, Messori L, Merlino A. A case of extensive protein platination: the reaction of lysozyme with a Pt(ii)–terpyridine complex. Dalton Trans 2018; 47:8716-8723. [DOI: 10.1039/c8dt01254g] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The interaction between a Pt(ii)–terpyridine cytotoxic compound and the model protein lysozyme has been investigated by X-ray crystallography and electrospray mass spectrometry under different experimental conditions. The compound shows a high reactivity with the model protein.
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Affiliation(s)
- Giarita Ferraro
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- I-80126 Napoli
- Italy
| | - Tiziano Marzo
- Department of Chemistry and Industrial Chemistry (DCCI)
- University of Pisa
- 56124 Pisa
- Italy
- Laboratory of Metals in Medicine (MetMed)
| | - Teresa Infrasca
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- I-80126 Napoli
- Italy
| | - Agostino Cilibrizzi
- Department of Chemistry
- Imperial College London
- London SW7 2AZ
- UK
- Institute of Pharmaceutical Science
| | - Ramon Vilar
- Department of Chemistry
- Imperial College London
- London SW7 2AZ
- UK
| | - Luigi Messori
- Laboratory of Metals in Medicine (MetMed)
- Department of Chemistry “U. Schiff”
- University of Florence
- 50019 Sesto Fiorentino
- Italy
| | - Antonello Merlino
- Department of Chemical Sciences
- University of Naples Federico II
- Complesso Universitario di Monte Sant'Angelo
- I-80126 Napoli
- Italy
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15
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Helliwell JR, McMahon B, Guss JM, Kroon-Batenburg LMJ. The science is in the data. IUCRJ 2017; 4:714-722. [PMID: 29123672 PMCID: PMC5668855 DOI: 10.1107/s2052252517013690] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2017] [Accepted: 09/24/2017] [Indexed: 05/22/2023]
Abstract
Understanding published research results should be through one's own eyes and include the opportunity to work with raw diffraction data to check the various decisions made in the analyses by the original authors. Today, preserving raw diffraction data is technically and organizationally viable at a growing number of data archives, both centralized and distributed, which are empowered to register data sets and obtain a preservation descriptor, typically a 'digital object identifier'. This introduces an important role of preserving raw data, namely understanding where we fail in or could improve our analyses. Individual science area case studies in crystallography are provided.
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Affiliation(s)
- John R. Helliwell
- School of Chemistry, University of Manchester, Manchester M13 9PL, England
| | - Brian McMahon
- International Union of Crystallography, 5 Abbey Square, Chester CH1 2HU, England
| | - J. Mitchell Guss
- School of Life and Environmental Sciences, The University of Sydney, Sydney, NSW 2006, Australia
| | - Loes M. J. Kroon-Batenburg
- Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, CH 3584 Utrecht, The Netherlands
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16
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Ferraro G, De Benedictis I, Malfitano A, Morelli G, Novellino E, Marasco D. Interactions of cisplatin analogues with lysozyme: a comparative analysis. Biometals 2017; 30:733-746. [DOI: 10.1007/s10534-017-0041-y] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2017] [Accepted: 08/07/2017] [Indexed: 10/19/2022]
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17
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Picone D, Donnarumma F, Ferraro G, Gotte G, Fagagnini A, Butera G, Donadelli M, Merlino A. A comparison study on RNase A oligomerization induced by cisplatin, carboplatin and oxaliplatin. J Inorg Biochem 2017; 173:105-112. [DOI: 10.1016/j.jinorgbio.2017.05.005] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2017] [Revised: 04/27/2017] [Accepted: 05/07/2017] [Indexed: 01/25/2023]
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18
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Pontillo N, Ferraro G, Helliwell JR, Amoresano A, Merlino A. X-ray Structure of the Carboplatin-Loaded Apo-Ferritin Nanocage. ACS Med Chem Lett 2017; 8:433-437. [PMID: 28435532 DOI: 10.1021/acsmedchemlett.7b00025] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2017] [Accepted: 02/28/2017] [Indexed: 12/14/2022] Open
Abstract
The second-generation Pt anticancer agent carboplatin (CBDCA) was encapsulated within the apo horse spleen ferritin (AFt) nanocage, and the X-ray structure of the drug-loaded protein was refined at 1.49 Å resolution. Two Pt binding sites, different from the one observed in the cisplatin-encapsulated AFt, were identified in Ft subunits by inspection of anomalous electron density maps at two wavelengths and difference Fourier electron density maps, which provide the necessary sensitivity to discriminate between Pt from CBDCA and Cd ions that are present in the crystallization conditions. Pt centers coordinate to the NE2 atom of His49 and to the NE2 atom of His132, both on the inner surface of the Ft nanocage.
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Affiliation(s)
- Nicola Pontillo
- Department
of Chemical Sciences, University of Naples Federico II, Complesso
Universitario di Monte Sant’Angelo, Via Cintia, I-80126 Napoli, Italy
| | - Giarita Ferraro
- Department
of Chemical Sciences, University of Naples Federico II, Complesso
Universitario di Monte Sant’Angelo, Via Cintia, I-80126 Napoli, Italy
| | - John R. Helliwell
- School
of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
| | - Angela Amoresano
- Department
of Chemical Sciences, University of Naples Federico II, Complesso
Universitario di Monte Sant’Angelo, Via Cintia, I-80126 Napoli, Italy
| | - Antonello Merlino
- Department
of Chemical Sciences, University of Naples Federico II, Complesso
Universitario di Monte Sant’Angelo, Via Cintia, I-80126 Napoli, Italy
- CNR Institute of Biostructures and Bioimages, Via Mezzocannone 16, I-80126 Napoli, Italy
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19
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Pontillo N, Pane F, Messori L, Amoresano A, Merlino A. Cisplatin encapsulation within a ferritin nanocage: a high-resolution crystallographic study. Chem Commun (Camb) 2016; 52:4136-9. [PMID: 26888424 DOI: 10.1039/c5cc10365g] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Cisplatin (CDDP) can be encapsulated within the central cavity of reconstituted (apo)ferritin, (A)Ft, to form a drug-loaded protein of potential great interest for targeted cancer treatments. In this study, the interactions occurring between cisplatin and native horse spleen Ft in CDDP-encapsulated AFt are investigated by high-resolution X-ray crystallography. A protein bound Pt center is unambiguously identified in AFt subunits by comparative analysis of difference Fourier electron density maps and of anomalous dispersion data. Indeed, a [Pt(NH3)2H2O](2+) fragment is found coordinated to the His132 residue located on the inner surface of the large AFt spherical cage. Remarkably, Pt binding does not alter the overall physicochemical features (shape, volume, polarity/hydrophobicity and electrostatic potential) of the outer surface of the AFt nanocage. CDDP-encapsulated AFt appears to be an ideal nanocarrier for CDDP delivery to target sites, as it possesses high biocompatibility and can be internalized by receptor mediated endocytosis, thus carrying the drug to tumor tissue with higher selectivity than free CDDP.
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Affiliation(s)
- Nicola Pontillo
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia, I-80126, Napoli, Italy.
| | - Francesca Pane
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia, I-80126, Napoli, Italy.
| | - Luigi Messori
- Department of Chemistry, University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino (FI), Italy
| | - Angela Amoresano
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia, I-80126, Napoli, Italy.
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia, I-80126, Napoli, Italy. and CNR Institute of Biostructures and Bioimages, Via Mezzocannone 16, I-80126, Napoli, Italy
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20
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Interactions between proteins and Ru compounds of medicinal interest: A structural perspective. Coord Chem Rev 2016. [DOI: 10.1016/j.ccr.2016.08.001] [Citation(s) in RCA: 88] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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21
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22
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Ferraro G, Pica A, Russo Krauss I, Pane F, Amoresano A, Merlino A. Effect of temperature on the interaction of cisplatin with the model protein hen egg white lysozyme. J Biol Inorg Chem 2016; 21:433-42. [PMID: 27040953 DOI: 10.1007/s00775-016-1352-0] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2016] [Accepted: 03/22/2016] [Indexed: 01/08/2023]
Abstract
The products of the reaction between cisplatin (CDDP) and the model protein hen egg white lysozyme (HEWL) at 20, 37 and 55 °C in pure water were studied by UV-Vis absorption spectroscopy, intrinsic fluorescence and circular dichroism, dynamic and electrophoretic light scattering and inductively coupled plasma mass spectrometry. X-ray structures were also solved for the adducts formed at 20 and 55 °C. Data demonstrate that high temperature facilitates the formation of CDDP-HEWL adducts, where Pt atoms bind ND1 atom of His15 or NE2 atom of His15 and NH1 atom of Arg14. Our study suggests that high human body temperature (fever) could increase the rate of drug binding to proteins thus enhancing possible toxic side effects related to CDDP administration.
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Affiliation(s)
- Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II, via Cintia, Naples, 80126, Italy
| | - Andrea Pica
- Department of Chemical Sciences, University of Naples Federico II, via Cintia, Naples, 80126, Italy
| | - Irene Russo Krauss
- Department of Chemical Sciences, University of Naples Federico II, via Cintia, Naples, 80126, Italy
| | - Francesca Pane
- Department of Chemical Sciences, University of Naples Federico II, via Cintia, Naples, 80126, Italy
| | - Angela Amoresano
- Department of Chemical Sciences, University of Naples Federico II, via Cintia, Naples, 80126, Italy
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II, via Cintia, Naples, 80126, Italy. .,CNR Institute of Biostructure and Bioimages, via Mezzocannone 16, Naples, 80100, Italy.
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23
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Marasco D, Messori L, Marzo T, Merlino A. Oxaliplatin vs. cisplatin: competition experiments on their binding to lysozyme. Dalton Trans 2016; 44:10392-8. [PMID: 25974859 DOI: 10.1039/c5dt01279a] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
The model protein hen egg white lysozyme was challenged with oxaliplatin and cisplatin. ESI mass spectrometry, surface plasmon resonance and thermal shift analyses demonstrate the formation of a bis-platinum adduct, though in very small amounts. Crystals of the bis-platinum adduct were obtained using two different preparations and the X-ray structures were solved at 1.85 Å and 1.95 Å resolution. Overall, the obtained data point out that, under the analyzed conditions, the two Pt drugs have similar affinities for the protein, but bind on its surface at two non-overlapping sites. In other words, these two drugs manifest a significantly different reactivity with this model protein and do not compete for the same protein binding sites.
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Affiliation(s)
- Daniela Marasco
- Department of Pharmacy, University of Naples Federico II, via Montesano 12, 80120, Napoli, Italy
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24
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Ferraro G, Massai L, Messori L, Merlino A. Cisplatin binding to human serum albumin: a structural study. Chem Commun (Camb) 2016; 51:9436-9. [PMID: 25873085 DOI: 10.1039/c5cc01751c] [Citation(s) in RCA: 99] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
The reaction between cisplatin and human serum albumin (HSA) was investigated by X-ray crystallography and crystal structures of the cisplatin/HSA adduct were eventually solved for the first time. Structural data unambiguously prove that cisplatin mainly binds to His105 and Met329 side chains; additional binding sites are detected at His288, Met298, and Met548 and at His535, His67 and His247.
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Affiliation(s)
- Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II, Complesso Universitario di Monte Sant'Angelo, Via Cintia, I-80126, Napoli, Italy.
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25
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Tanley SWM, Schreurs AMM, Kroon-Batenburg LMJ, Helliwell JR. Re-refinement of 4xan: hen egg-white lysozyme with carboplatin in sodium bromide solution. ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS 2016; 72:251-2. [PMID: 26919531 PMCID: PMC4774886 DOI: 10.1107/s2053230x16000777] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Accepted: 01/14/2016] [Indexed: 11/18/2022]
Abstract
An addendum is published to Tanley et al. [(2014), Acta Cryst. F70, 1135–1142]. A re-refinement of 4xan, hen egg-white lysozyme (HEWL) with carboplatin crystallized in NaBr solution, has been made and is published here as an addendum to Tanley et al. [(2014), Acta Cryst. F70, 1135–1142]. This follows a previous re-refinement and PDB deposition (4yem) by Shabalin et al. [(2015), Acta Cryst. D71, 1965–1979]. The critical evaluation of the original PDB deposition (4xan), and the subsequent critical examination of the re-refined structure (4yem), has led to an improved model (PDB code 5hmj).
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Affiliation(s)
- Simon W M Tanley
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester, M13 9PL, England
| | - Antoine M M Schreurs
- Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Faculty of Science, Utrecht University, Padualaan 8, Utrecht, 3584 CH, The Netherlands
| | - Loes M J Kroon-Batenburg
- Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Faculty of Science, Utrecht University, Padualaan 8, Utrecht, 3584 CH, The Netherlands
| | - John R Helliwell
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester, M13 9PL, England
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26
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Tanley SWM, Diederichs K, Kroon-Batenburg LMJ, Levy C, Schreurs AMM, Helliwell JR. Response from Tanley et al. to Crystallography and chemistry should always go together: a cautionary tale of protein complexes with cisplatin and carboplatin. ACTA ACUST UNITED AC 2015; 71:1982-3. [PMID: 26327388 DOI: 10.1107/s1399004715014340] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2015] [Accepted: 07/29/2015] [Indexed: 05/28/2023]
Affiliation(s)
- Simon W M Tanley
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
| | - Kay Diederichs
- Department of Biology, University of Konstanz, 78457 Konstanz, Germany
| | - Loes M J Kroon-Batenburg
- Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Faculty of Science, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - Colin Levy
- Manchester Institute of Biotechnology (MIB), University of Manchester, 131 Princess Street, Manchester M1 7DN, England
| | - Antoine M M Schreurs
- Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Faculty of Science, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - John R Helliwell
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
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27
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Mügge C, Marzo T, Massai L, Hildebrandt J, Ferraro G, Rivera-Fuentes P, Metzler-Nolte N, Merlino A, Messori L, Weigand W. Platinum(II) Complexes with O,S Bidentate Ligands: Biophysical Characterization, Antiproliferative Activity, and Crystallographic Evidence of Protein Binding. Inorg Chem 2015; 54:8560-70. [PMID: 26280387 DOI: 10.1021/acs.inorgchem.5b01238] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
We recently characterized a series of novel platinum(II) compounds bearing a conserved O,S binding moiety as a bifunctional ligand and evaluated their solution behavior and antiproliferative properties in vitro against a representative cancer cell line. On the whole, those platinum compounds showed an appreciable stability in mixed dimethyl sulfoxide-aqueous buffers and promising in vitro cytotoxic effects; yet they manifested a rather limited solubility in aqueous media making them poorly suitable for further pharmaceutical development. To overcome this drawback, four new derivatives of this series were prepared and characterized based on a careful choice of substituents on the O,S bidentate ligand. The solubility and stability profile of these novel compounds in a reference buffer was determined, as well as the ligands' log P(o/w) value (P(o/w) = n-octanol-water partition coefficient) as an indirect measure for the complexes' lipophilicity. The antiproliferative properties were comparatively evaluated in a panel of three cancer cell lines. The protein binding properties of the four platinum compounds were assessed using the model protein hen egg white lysozyme (HEWL), and the molecular structures of two relevant HEWL-metallodrug adducts were solved. Overall, it is shown that a proper choice of the substituents leads to a higher solubility and enables a selective fine-tuning of the antiproliferative properties. The implications of these results are thoroughly discussed.
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Affiliation(s)
- Carolin Mügge
- Institute of Inorganic and Analytical Chemistry, Friedrich-Schiller-University Jena , Humboldtstraße 8, 07743 Jena, Germany.,Inorganic Chemistry I - Bioinorganic Chemistry, Faculty of Chemistry and Biochemistry, Ruhr University Bochum , Universitaetsstrasse 150, 44801 Bochum, Germany
| | - Tiziano Marzo
- Laboratory of Metals in Medicine, Department of Chemistry, University of Florence , Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Lara Massai
- Laboratory of Metals in Medicine, Department of Chemistry, University of Florence , Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Jana Hildebrandt
- Institute of Inorganic and Analytical Chemistry, Friedrich-Schiller-University Jena , Humboldtstraße 8, 07743 Jena, Germany
| | - Giarita Ferraro
- Department of Chemical Sciences, University of Naples Federico II , via Cintia, Napoli I-80126, Italy
| | - Pablo Rivera-Fuentes
- Department of Chemistry, Chemistry Research Laboratory, University of Oxford , 12 Mansfield Road, Oxford OX1 3TA, United Kingdom
| | - Nils Metzler-Nolte
- Inorganic Chemistry I - Bioinorganic Chemistry, Faculty of Chemistry and Biochemistry, Ruhr University Bochum , Universitaetsstrasse 150, 44801 Bochum, Germany
| | - Antonello Merlino
- Department of Chemical Sciences, University of Naples Federico II , via Cintia, Napoli I-80126, Italy.,CNR Institute of Biostructures and Bioimages , via Mezzocannone 16, Napoli I-80100, Italy
| | - Luigi Messori
- Laboratory of Metals in Medicine, Department of Chemistry, University of Florence , Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Wolfgang Weigand
- Institute of Inorganic and Analytical Chemistry, Friedrich-Schiller-University Jena , Humboldtstraße 8, 07743 Jena, Germany.,Jena Center for Soft Matter (JCSM) , Philosophenweg 7, 07743 Jena, Germany
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28
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Ferraro G, Massai L, Messori L, Cinellu MA, Merlino A. Structural evidences for a secondary gold binding site in the hydrophobic box of lysozyme. Biometals 2015; 28:745-54. [DOI: 10.1007/s10534-015-9863-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2015] [Accepted: 05/21/2015] [Indexed: 12/11/2022]
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29
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Kroon-Batenburg LMJ, Helliwell JR. Experiences with making diffraction image data available: what metadata do we need to archive? ACTA CRYSTALLOGRAPHICA. SECTION D, BIOLOGICAL CRYSTALLOGRAPHY 2014; 70:2502-9. [PMID: 25286836 PMCID: PMC4187998 DOI: 10.1107/s1399004713029817] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/06/2013] [Accepted: 10/30/2013] [Indexed: 11/23/2022]
Abstract
Recently, the IUCr (International Union of Crystallography) initiated the formation of a Diffraction Data Deposition Working Group with the aim of developing standards for the representation of raw diffraction data associated with the publication of structural papers. Archiving of raw data serves several goals: to improve the record of science, to verify the reproducibility and to allow detailed checks of scientific data, safeguarding against fraud and to allow reanalysis with future improved techniques. A means of studying this issue is to submit exemplar publications with associated raw data and metadata. In a recent study of the binding of cisplatin and carboplatin to histidine in lysozyme crystals under several conditions, the possible effects of the equipment and X-ray diffraction data-processing software on the occupancies and B factors of the bound Pt compounds were compared. Initially, 35.3 GB of data were transferred from Manchester to Utrecht to be processed with EVAL. A detailed description and discussion of the availability of metadata was published in a paper that was linked to a local raw data archive at Utrecht University and also mirrored at the TARDIS raw diffraction data archive in Australia. By making these raw diffraction data sets available with the article, it is possible for the diffraction community to make their own evaluation. This led to one of the authors of XDS (K. Diederichs) to re-integrate the data from crystals that supposedly solely contained bound carboplatin, resulting in the analysis of partially occupied chlorine anomalous electron densities near the Pt-binding sites and the use of several criteria to more carefully assess the diffraction resolution limit. General arguments for archiving raw data, the possibilities of doing so and the requirement of resources are discussed. The problems associated with a partially unknown experimental setup, which preferably should be available as metadata, is discussed. Current thoughts on data compression are summarized, which could be a solution especially for pixel-device data sets with fine slicing that may otherwise present an unmanageable amount of data.
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Affiliation(s)
- Loes M. J. Kroon-Batenburg
- Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - John R. Helliwell
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M14 9PL, England
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30
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Tanley SWM, Helliwell JR. Chemical conversion of cisplatin and carboplatin with histidine in a model protein crystallized under sodium iodide conditions. ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS 2014; 70:1127-31. [PMID: 25195879 PMCID: PMC4157406 DOI: 10.1107/s2053230x14013995] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/02/2014] [Accepted: 06/14/2014] [Indexed: 12/04/2022]
Abstract
Crystals of HEWL with cisplatin and HEWL with carboplatin grown in sodium iodide conditions both show a partial chemical transformation of cisplatin or carboplatin to a transiodoplatin (PtI2X2) form. The binding is only at the Nδ atom of His15. A further Pt species (PtI3X) is also seen, in both cases bound in a crevice between symmetry-related protein molecules. Cisplatin and carboplatin are platinum anticancer agents that are used to treat a variety of cancers. Previous X-ray crystallographic studies of carboplatin binding to histidine in hen egg-white lysozyme (HEWL) showed a partial chemical conversion of carboplatin to cisplatin owing to the high sodium chloride concentration used in the crystallization conditions. Also, the co-crystallization of HEWL with carboplatin in sodium bromide conditions resulted in the partial conversion of carboplatin to the transbromoplatin form, with a portion of the cyclobutanedicarboxylate (CBDC) moiety still present. The results of the co-crystallization of HEWL with cisplatin or carboplatin in sodium iodide conditions are now reported in order to determine whether the cisplatin and carboplatin converted to the iodo form, and whether this took place in a similar way to the partial conversion of carboplatin to cisplatin in NaCl conditions or to transbromoplatin in NaBr conditions as seen previously. It is reported here that a partial chemical transformation has taken place to a transplatin form for both ligands. The NaI-grown crystals belonged to the monoclinic space group P21 with two molecules in the asymmetric unit. The chemically transformed cisplatin and carboplatin bind to both His15 residues, i.e. in each asymmetric unit. The binding is only at the Nδ atom of His15. A third platinum species is also seen in both conditions bound in a crevice between symmetry-related molecules. Here, the platinum is bound to three I atoms identified based on their anomalous difference electron densities and their refined occupancies, with the fourth bound atom being a Cl atom (in the cisplatin case) or a portion of the CBDC moiety (in the carboplatin case).
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Affiliation(s)
- Simon W M Tanley
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
| | - John R Helliwell
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
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Tanley SWM, Starkey LV, Lamplough L, Kaenket S, Helliwell JR. The binding of platinum hexahalides (Cl, Br and I) to hen egg-white lysozyme and the chemical transformation of the PtI6 octahedral complex to a PtI3 moiety bound to His15. ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS 2014; 70:1132-4. [PMID: 25195880 PMCID: PMC4157407 DOI: 10.1107/s2053230x14014009] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/02/2014] [Accepted: 06/14/2014] [Indexed: 11/10/2022]
Abstract
The platinum hexahalides have an octahedral arrangement of six halogen atoms bound to a Pt centre, thus having an octahedral shape that could prove to be useful in interpreting poor electron-density maps. In a detailed characterization, PtI6 chemically transformed to a square-planar PtI3 complex bound to the Nδ atom of His15 of HEWL was also observed, which was not observed for PtBr6 or PtCl6. This study examines the binding and chemical stability of the platinum hexahalides K2PtCl6, K2PtBr6 and K2PtI6 when soaked into pre-grown hen egg-white lysozyme (HEWL) crystals as the protein host. Direct comparison of the iodo complex with the chloro and bromo complexes shows that the iodo complex is partly chemically transformed to a square-planar PtI3 complex bound to the Nδ atom of His15, a chemical behaviour that is not exhibited by the chloro or bromo complexes. Each complex does, however, bind to HEWL in its octahedral form either at one site (PtI6) or at two sites (PtBr6 and PtCl6). As heavy-atom derivatives of a protein, the octahedral shape of the hexahalides could be helpful in cases of difficult-to-interpret electron-density maps as they would be recognisable ‘objects’.
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Affiliation(s)
- Simon W M Tanley
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
| | - Laurina-Victoria Starkey
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
| | - Lucinda Lamplough
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
| | - Surasek Kaenket
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
| | - John R Helliwell
- School of Chemistry, Faculty of Engineering and Physical Sciences, University of Manchester, Brunswick Street, Manchester M13 9PL, England
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32
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Tanley SWM, Helliwell JR. Structural dynamics of cisplatin binding to histidine in a protein. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2014; 1:034701. [PMID: 26798779 PMCID: PMC4711607 DOI: 10.1063/1.4883975] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2014] [Accepted: 06/03/2014] [Indexed: 05/04/2023]
Abstract
The platinum anti-cancer agents cisplatin and carboplatin bind to the histidine 15 residue in the model protein hen egg white lysozyme. By using temperatures either side of the protein glass transition state (∼180 K), several platinum binding modes are seen and show that not all these platinum modes are stable. In particular, the mean square displacement vibration amplitudes of the cisplatin and of the histidine to which it is bound are analysed in detail. As well as the multiple platinum peaks, the electron density for the His-15 side chain is weak to absent at 150 K and 200 K, which points to the imidazole ring of the His side chain sampling multiple positions. Most interestingly, the His-15 imidazole becomes more ordered at room temperature.
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Affiliation(s)
- Simon W M Tanley
- School of Chemistry , University of Manchester , Brunswick Street, Manchester M13 9PL, England
| | - John R Helliwell
- School of Chemistry , University of Manchester , Brunswick Street, Manchester M13 9PL, England
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