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Kehrein J, Gürsöz E, Davies M, Luxenhofer R, Bunker A. Unravel the Tangle: Atomistic Insight into Ultrahigh Curcumin-Loaded Polymer Micelles. Small 2023; 19:e2303066. [PMID: 37403298 DOI: 10.1002/smll.202303066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 06/22/2023] [Indexed: 07/06/2023]
Abstract
Amphiphilic ABA-triblock copolymers, comprised of poly(2-oxazoline) and poly(2-oxazine), can solubilize poorly water-soluble molecules in a structure-dependent manner forming micelles with exceptionally high drug loading. All-atom molecular dynamics simulations are conducted on previously experimentally characterized, curcumin-loaded micelles to dissect the structure-property relationships. Polymer-drug interactions for different levels of drug loading and variation in polymer structures of both the inner hydrophobic core and outer hydrophilic shell are investigated. In silico, the system with the highest experimental loading capacity shows the highest number of drug molecules encapsulated by the core. Furthermore, in systems with lower loading capacity outer A blocks show a greater extent of entanglement with the inner B blocks. Hydrogen bond analyses corroborate previous hypotheses: poly(2-butyl-2-oxazoline) B blocks, found experimentally to have reduced loading capacity for curcumin compared to poly(2-propyl-2-oxazine), establish fewer but longer-lasting hydrogen bonds. This possibly results from different sidechain conformations around the hydrophobic cargo, which is investigated by unsupervised machine learning to cluster monomers in smaller model systems mimicking different micelle compartments. Exchanging poly(2-methyl-2-oxazoline) with poly(2-ethyl-2-oxazoline) leads to increased drug interactions and reduced corona hydration; this suggests an impairment of micelle solubility or colloidal stability. These observations can help driving forward a more rational a priori nanoformulation design.
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Affiliation(s)
- Josef Kehrein
- Soft Matter Chemistry, Department of Chemistry, Faculty of Science, University of Helsinki, Helsinki, 00014, Finland
- Division of Pharmaceutical Biosciences, Drug Research Program, Faculty of Pharmacy, University of Helsinki, Helsinki, 00014, Finland
| | - Ekinsu Gürsöz
- Soft Matter Chemistry, Department of Chemistry, Faculty of Science, University of Helsinki, Helsinki, 00014, Finland
- Division of Pharmaceutical Biosciences, Drug Research Program, Faculty of Pharmacy, University of Helsinki, Helsinki, 00014, Finland
| | - Matthew Davies
- Department of Physics and Astronomy, The University of Western Ontario, 1151 Richmond Street, London, Ontario, N6A 5B7, Canada
| | - Robert Luxenhofer
- Soft Matter Chemistry, Department of Chemistry, Faculty of Science, University of Helsinki, Helsinki, 00014, Finland
| | - Alex Bunker
- Division of Pharmaceutical Biosciences, Drug Research Program, Faculty of Pharmacy, University of Helsinki, Helsinki, 00014, Finland
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2
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Wang R, Shi X, Li K, Bunker A, Li C. Activity and potential mechanisms of action of persimmon tannins according to their structures: A review. Int J Biol Macromol 2023; 242:125120. [PMID: 37263329 DOI: 10.1016/j.ijbiomac.2023.125120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 05/22/2023] [Accepted: 05/24/2023] [Indexed: 06/03/2023]
Abstract
One distinguishing feature of the persimmon, that differentiates it from other fruits, is its high proanthocyanidins content, known as persimmon tannin (PT). Despite the poor absorption of PT in the small intestine, results from animal studies demonstrate that PT has many health benefits. Our goal in this review is to summarize the literature that elucidates the relationship between PT structure and activity. In addition, we also summarize the potential mechanisms underlying the health benefits that result from PT consumption; this includes the hypolipidemic, hypoglycemic, antioxidant, anti-inflammatory, antiradiation, antibacterial and antiviral, detoxification effects on snake venom, and the absorption of heavy metals and dyes. Studies show that PT is a structurally distinct proanthocyanidins that exhibits a high degree of polymerization. It is galloylation-rich and possesses unique A-type interflavan linkages in addition to the more common B-type interflavan bonds. Thus, PT is converted into oligomeric proanthocyanidins by depolymerization strategies, including the nucleophilic substitution reaction, acid hydrolysis, and hydrogenolysis. In addition, multiple health benefits exerted by PT mainly involve the inactivation of lipogenic and intracellular inflammatory signaling pathways, activation of the fatty acid oxidation signaling pathway, regulation of gut microbiota, and highly absorptive properties.
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Affiliation(s)
- Ruifeng Wang
- College of Food Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, China
| | - Xin Shi
- College of Food Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, China
| | - Kaikai Li
- College of Food Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, China
| | - Alex Bunker
- Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki, Helsinki 00014, Finland
| | - Chunmei Li
- College of Food Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, China; Key Laboratory of Environment Correlative Food Science, Ministry of Education, Huazhong Agricultural University, Wuhan, Hubei 430070, China.
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Lautala S, Provenzani R, Tarvainen I, Sirna K, Karhu ST, Grazhdankin E, Lehtinen AK, Sa'd H, Koivuniemi A, Xhaard H, Tuominen RK, Talman V, Bunker A, Yli-Kauhaluoma J. Expanding the Paradigm of Structure-Based Drug Design: Molecular Dynamics Simulations Support the Development of New Pyridine-Based Protein Kinase C-Targeted Agonists. J Med Chem 2023; 66:4588-4602. [PMID: 37010933 PMCID: PMC10108360 DOI: 10.1021/acs.jmedchem.2c01448] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/04/2023]
Abstract
Protein kinase C (PKC) modulators hold therapeutic potential for various diseases, including cancer, heart failure, and Alzheimer's disease. Targeting the C1 domain of PKC represents a promising strategy; the available protein structures warrant the design of PKC-targeted ligands via a structure-based approach. However, the PKC C1 domain penetrates the lipid membrane during binding, complicating the design of drug candidates. The standard docking-scoring approach for PKC lacks information regarding the dynamics and the membrane environment. Molecular dynamics (MD) simulations with PKC, ligands, and membranes have been used to address these shortcomings. Previously, we observed that less computationally intensive simulations of just ligand-membrane interactions may help elucidate C1 domain-binding prospects. Here, we present the design, synthesis, and biological evaluation of new pyridine-based PKC agonists implementing an enhanced workflow with ligand-membrane MD simulations. This workflow holds promise to expand the approach in drug design for ligands targeted to weakly membrane-associated proteins.
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Affiliation(s)
- Saara Lautala
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Riccardo Provenzani
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Ilari Tarvainen
- Drug Research Program, Division of Pharmacology and Pharmacotherapy, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Katia Sirna
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - S Tuuli Karhu
- Drug Research Program, Division of Pharmacology and Pharmacotherapy, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Evgeni Grazhdankin
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Antti K Lehtinen
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Hanan Sa'd
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
- School of Pharmacy, The University of Jordan, Queen Rania Street, 11942 Amman, Jordan
| | - Artturi Koivuniemi
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Henri Xhaard
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Raimo K Tuominen
- Drug Research Program, Division of Pharmacology and Pharmacotherapy, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Virpi Talman
- Drug Research Program, Division of Pharmacology and Pharmacotherapy, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Alex Bunker
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
| | - Jari Yli-Kauhaluoma
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56 (Viikinkaari 5 E), FI-00014 Helsinki, Finland
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Heinonen S, Lautala S, Koivuniemi A, Bunker A. Insights into the behavior of unsaturated diacylglycerols in mixed lipid bilayers in relation to protein kinase C activation-A molecular dynamics simulation study. Biochim Biophys Acta Biomembr 2022; 1864:183961. [PMID: 35568204 DOI: 10.1016/j.bbamem.2022.183961] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Revised: 05/02/2022] [Accepted: 05/04/2022] [Indexed: 06/15/2023]
Abstract
The lipid second messenger diacylglycerol (DAG) is known for its involvement in many types of cellular signaling, especially as an endogenous agonist for protein kinase C (PKC). Evidence has emerged that the degree of saturation of the DAG molecules can affect PKC activation. DAG molecules with different acyl chain saturation have not only been observed to induce varying extents of PKC activation, but also to express selectivity towards different PKC isozymes. Both qualities are important for precise therapeutic activation of PKC; understanding DAG behavior at the molecular level in different environments has much potential in the development of drugs to target PKC. We used molecular dynamics simulations to study the behavior of two different unsaturated DAG species in lipid environments with varying degrees of unsaturation. We focus on phosphatidylethanolamine (PE) instead of phosphatidylcholine (PC) to more accurately model the relevant biomembranes. The effect of cholesterol (CHOL) on these systems was also explored. We found that both high level of unsaturation in the acyl chains of the DAG species and presence of CHOL in the surrounding membrane increase DAG molecule availability at the lipid-water interface. This can partially explain the previously observed differences in PKC activation strength and specificity, the complete mechanism is, however, likely to be more complex. Our simulations coupled with the current understanding of lipids highlight the need for more simulations of biologically accurate lipid environments in order to determine the correct correlations between molecular mechanisms and biological behavior when studying PKC activation.
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Affiliation(s)
- Suvi Heinonen
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, FI-00014, Helsinki, Finland
| | - Saara Lautala
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, FI-00014, Helsinki, Finland.
| | - Artturi Koivuniemi
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, FI-00014, Helsinki, Finland
| | - Alex Bunker
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, FI-00014, Helsinki, Finland
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Róg T, Girych M, Bunker A. Mechanistic Understanding from Molecular Dynamics in Pharmaceutical Research 2: Lipid Membrane in Drug Design. Pharmaceuticals (Basel) 2021; 14:1062. [PMID: 34681286 PMCID: PMC8537670 DOI: 10.3390/ph14101062] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Revised: 10/14/2021] [Accepted: 10/15/2021] [Indexed: 11/17/2022] Open
Abstract
We review the use of molecular dynamics (MD) simulation as a drug design tool in the context of the role that the lipid membrane can play in drug action, i.e., the interaction between candidate drug molecules and lipid membranes. In the standard "lock and key" paradigm, only the interaction between the drug and a specific active site of a specific protein is considered; the environment in which the drug acts is, from a biophysical perspective, far more complex than this. The possible mechanisms though which a drug can be designed to tinker with physiological processes are significantly broader than merely fitting to a single active site of a single protein. In this paper, we focus on the role of the lipid membrane, arguably the most important element outside the proteins themselves, as a case study. We discuss work that has been carried out, using MD simulation, concerning the transfection of drugs through membranes that act as biological barriers in the path of the drugs, the behavior of drug molecules within membranes, how their collective behavior can affect the structure and properties of the membrane and, finally, the role lipid membranes, to which the vast majority of drug target proteins are associated, can play in mediating the interaction between drug and target protein. This review paper is the second in a two-part series covering MD simulation as a tool in pharmaceutical research; both are designed as pedagogical review papers aimed at both pharmaceutical scientists interested in exploring how the tool of MD simulation can be applied to their research and computational scientists interested in exploring the possibility of a pharmaceutical context for their research.
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Affiliation(s)
- Tomasz Róg
- Department of Physics, University of Helsinki, 00014 Helsinki, Finland;
| | - Mykhailo Girych
- Department of Physics, University of Helsinki, 00014 Helsinki, Finland;
| | - Alex Bunker
- Drug Research Program, Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki, 00014 Helsinki, Finland;
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Mahmoudzadeh M, Magarkar A, Koivuniemi A, Róg T, Bunker A. Mechanistic Insight into How PEGylation Reduces the Efficacy of pH-Sensitive Liposomes from Molecular Dynamics Simulations. Mol Pharm 2021; 18:2612-2621. [PMID: 34096310 PMCID: PMC8289284 DOI: 10.1021/acs.molpharmaceut.1c00122] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
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Liposome-based drug
delivery systems composed of DOPE stabilized
with cholesteryl hemisuccinate (CHMS) have been proposed as a drug
delivery mechanism with pH-triggered release as the anionic form (CHSa)
is protonated (CHS) at reduced pH; PEGylation is known to decrease
this pH sensitivity. In this manuscript, we set out to use molecular
dynamics (MD) simulations with a model with all-atom resolution to
provide insight into why incorporation of poly(ethyleneglycol) (PEG)
into DOPE–CHMS liposomes reduces their pH sensitivity; we also
address two additional questions: (1) How CHSa stabilizes DOPE bilayers
into a lamellar conformation at a physiological pH of 7.4? and (2)
how the change from CHSa to CHS at acidic pH triggers the destabilization
of DOPE bilayers? We found that (A) CHSa stabilizes the DOPE lipid
membrane by increasing the hydrophilicity of the bilayer surface,
(B) when CHSa changes to CHS by pH reduction, DOPE bilayers are destabilized
due to a reduction in bilayer hydrophilicity and a reduction in the
area per lipid, and (C) PEG stabilizes DOPE bilayers into the lamellar
phase, thus reducing the pH sensitivity of the liposomes by increasing
the area per lipid through penetration into the bilayer, which is
our main focus.
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Affiliation(s)
- Mohammad Mahmoudzadeh
- Drug Research Program, Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki, 00100 Helsinki, Finland
| | - Aniket Magarkar
- Medicinal Chemistry, Boehringer Ingelheim Pharma GmbH & Co. KG, Birkendorfer Strasse 65, D-88397 Biberach a.d. Riss, Germany
| | - Artturi Koivuniemi
- Drug Research Program, Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki, 00100 Helsinki, Finland
| | - Tomasz Róg
- Faculty of Pharmacy, University of Helsinki, P.O. Box 56, Viikinkaarie 5 E, FI-00014 Helsinki, Finland
| | - Alex Bunker
- Faculty of Pharmacy, University of Helsinki, P.O. Box 56, Viikinkaarie 5 E, FI-00014 Helsinki, Finland
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Bunker A, Róg T. Mechanistic Understanding From Molecular Dynamics Simulation in Pharmaceutical Research 1: Drug Delivery. Front Mol Biosci 2020; 7:604770. [PMID: 33330633 PMCID: PMC7732618 DOI: 10.3389/fmolb.2020.604770] [Citation(s) in RCA: 37] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Accepted: 11/02/2020] [Indexed: 12/12/2022] Open
Abstract
In this review, we outline the growing role that molecular dynamics simulation is able to play as a design tool in drug delivery. We cover both the pharmaceutical and computational backgrounds, in a pedagogical fashion, as this review is designed to be equally accessible to pharmaceutical researchers interested in what this new computational tool is capable of and experts in molecular modeling who wish to pursue pharmaceutical applications as a context for their research. The field has become too broad for us to concisely describe all work that has been carried out; many comprehensive reviews on subtopics of this area are cited. We discuss the insight molecular dynamics modeling has provided in dissolution and solubility, however, the majority of the discussion is focused on nanomedicine: the development of nanoscale drug delivery vehicles. Here we focus on three areas where molecular dynamics modeling has had a particularly strong impact: (1) behavior in the bloodstream and protective polymer corona, (2) Drug loading and controlled release, and (3) Nanoparticle interaction with both model and biological membranes. We conclude with some thoughts on the role that molecular dynamics simulation can grow to play in the development of new drug delivery systems.
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Affiliation(s)
- Alex Bunker
- Division of Pharmaceutical Biosciences, Drug Research Program, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | - Tomasz Róg
- Department of Physics, University of Helsinki, Helsinki, Finland
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Lautala S, Provenzani R, Koivuniemi A, Kulig W, Talman V, Róg T, Tuominen RK, Yli-Kauhaluoma J, Bunker A. Rigorous Computational Study Reveals What Docking Overlooks: Double Trouble from Membrane Association in Protein Kinase C Modulators. J Chem Inf Model 2020; 60:5624-5633. [PMID: 32915560 DOI: 10.1021/acs.jcim.0c00624] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Increasing protein kinase C (PKC) activity is of potential therapeutic value. Its activation involves an interaction between the C1 domain and diacylglycerol (DAG) at intracellular membrane surfaces; DAG mimetics hold promise as new drugs. We previously developed the isophthalate derivative HMI-1a3, an effective but highly lipophilic (clogP = 6.46) DAG mimetic. Although a less lipophilic pyrimidine analog, PYR-1gP (clogP = 3.30), gave positive results in computational docking, it unexpectedly presented greatly diminished binding to PKC in vitro. Through more rigorous computational molecular modeling, we reveal that, unlike HMI-1a3, PYR-1gP forms an intramolecular hydrogen bond, which both obstructs binding and reorients PYR-1gP in the membrane in a fashion that prevents it from correctly accessing the PKC C1 domain. Our results highlight the great value of molecular dynamics simulations as a key component for the drug design process of ligands targeting weakly membrane-associated proteins, where simulation in the relevant membrane environment is crucial for obtaining biologically applicable results.
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Affiliation(s)
- Saara Lautala
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, Viikinkaari 5 E, FI-00014 Helsinki, Finland
| | - Riccardo Provenzani
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56, Viikinkaari 5 E, FI-00014 Helsinki, Finland
| | - Artturi Koivuniemi
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, Viikinkaari 5 E, FI-00014 Helsinki, Finland
| | - Waldemar Kulig
- Department of Physics, University of Helsinki, P.O. Box 64, Gustaf Hällströmin katu 2, FI-00014 Helsinki, Finland
| | - Virpi Talman
- Drug Research Program, Division of Pharmacology and Pharmacotherapy, University of Helsinki, P.O. Box 56, Viikinkaari 5 E, FI-00014 Helsinki, Finland.,National Heart and Lung Institute, Imperial College London, Hammersmith Campus, London W12 0NN, United Kingdom
| | - Tomasz Róg
- Department of Physics, University of Helsinki, P.O. Box 64, Gustaf Hällströmin katu 2, FI-00014 Helsinki, Finland
| | - Raimo K Tuominen
- Drug Research Program, Division of Pharmacology and Pharmacotherapy, University of Helsinki, P.O. Box 56, Viikinkaari 5 E, FI-00014 Helsinki, Finland
| | - Jari Yli-Kauhaluoma
- Drug Research Program, Division of Pharmaceutical Chemistry and Technology, University of Helsinki, P.O. Box 56, Viikinkaari 5 E, FI-00014 Helsinki, Finland
| | - Alex Bunker
- Drug Research Program, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, Viikinkaari 5 E, FI-00014 Helsinki, Finland
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Poojari C, Zak A, Dzieciuch-Rojek M, Bunker A, Kepczynski M, Róg T. Cholesterol Reduces Partitioning of Antifungal Drug Itraconazole into Lipid Bilayers. J Phys Chem B 2020; 124:2139-2148. [PMID: 32101005 PMCID: PMC7735721 DOI: 10.1021/acs.jpcb.9b11005] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
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Cholesterol
plays a crucial role in modulating the physicochemical
properties of biomembranes, both increasing mechanical strength and
decreasing permeability. Cholesterol is also a common component of
vesicle-based delivery systems, including liposome-based drug delivery
systems (LDSs). However, its effect on the partitioning of drug molecules
to lipid membranes is very poorly recognized. Herein, we performed
a combined experimental/computational study of the potential for the
use of the LDS formulation for the delivery of the antifungal drug
itraconazole (ITZ). We consider the addition of cholesterol to the
lipid membrane. Since ITZ is only weakly soluble in water, its bioavailability
is limited. Use of an LDS has thus been proposed. We studied lipid
membranes composed of cholesterol, 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphocholine (POPC), and ITZ using a combination of
computational molecular dynamics (MD) simulations of lipid bilayers
and Brewster angle microscopy (BAM) experiments of monolayers. Both
experimental and computational results show separation of cholesterol
and ITZ. Cholesterol has a strong preference to orient parallel to
the bilayer normal. However, ITZ, a long and relatively rigid molecule
with weakly hydrophilic groups along the backbone, predominantly locates
below the interface between the hydrocarbon chain region and the polar
region of the membrane, with its backbone oriented parallel to the
membrane surface; the orthogonal orientation in the membrane could
be the cause of the observed separation. In addition, fluorescence
measurements demonstrated that the affinity of ITZ for the lipid membrane
is decreased by the presence of cholesterol, which is thus probably
not a suitable formulation component of an LDS designed for ITZ delivery.
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Affiliation(s)
- Chetan Poojari
- Department of Physics, Faculty of Science, University of Helsinki, P.O. Box 64, FI-00014 Helsinki, Finland.,Theoretical Physics and Center for Biophysics, Saarland University, 66123 Saarbrücken, Germany
| | - Agata Zak
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland
| | | | - Alex Bunker
- Division of Pharmaceutical Biosciences, Drug Research Program, Faculty of Pharmacy, University of Helsinki, Viikinkaari 5 E, 00014 Helsinki, Finland
| | - Mariusz Kepczynski
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland
| | - Tomasz Róg
- Department of Physics, Faculty of Science, University of Helsinki, P.O. Box 64, FI-00014 Helsinki, Finland
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10
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Mastrotto F, Brazzale C, Bellato F, De Martin S, Grange G, Mahmoudzadeh M, Magarkar A, Bunker A, Salmaso S, Caliceti P. In Vitro and in Vivo Behavior of Liposomes Decorated with PEGs with Different Chemical Features. Mol Pharm 2020; 17:1444. [PMID: 32083483 DOI: 10.1021/acs.molpharmaceut.0c00149] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Francesca Mastrotto
- Department of Pharmaceutical and Pharmacological Sciences, University of Padova, via F. Marzolo 5, 35131 Padova, Italy
| | - Chiara Brazzale
- Department of Pharmaceutical and Pharmacological Sciences, University of Padova, via F. Marzolo 5, 35131 Padova, Italy
| | - Federica Bellato
- Department of Pharmaceutical and Pharmacological Sciences, University of Padova, via F. Marzolo 5, 35131 Padova, Italy
| | - Sara De Martin
- Department of Pharmaceutical and Pharmacological Sciences, University of Padova, via F. Marzolo 5, 35131 Padova, Italy
| | - Guillaume Grange
- Drug Research Program, Faculty of Pharmacy, University of Helsinki, 00014 Helsinki, Finland
| | - Mohammad Mahmoudzadeh
- Drug Research Program, Faculty of Pharmacy, University of Helsinki, 00014 Helsinki, Finland
| | - Aniket Magarkar
- Institute of Organic Chemistry and Biochemistry, Academy of the Sciences of the Czech Republic, 166 10 Prague, Czech Republic
| | - Alex Bunker
- Drug Research Program, Faculty of Pharmacy, University of Helsinki, 00014 Helsinki, Finland
| | - Stefano Salmaso
- Department of Pharmaceutical and Pharmacological Sciences, University of Padova, via F. Marzolo 5, 35131 Padova, Italy
| | - Paolo Caliceti
- Department of Pharmaceutical and Pharmacological Sciences, University of Padova, via F. Marzolo 5, 35131 Padova, Italy
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11
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Bunker A. Bitopic and Peripheral Membrane Proteins as Drug Targets: Broader Biophysical Insight from Biomembrane Simulations that Transcends the “Lock and Key” Paradigm. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.992] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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12
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Mastrotto F, Brazzale C, Bellato F, De Martin S, Grange G, Mahmoudzadeh M, Magarkar A, Bunker A, Salmaso S, Caliceti P. In Vitro and in Vivo Behavior of Liposomes Decorated with PEGs with Different Chemical Features. Mol Pharm 2020; 17:472-487. [PMID: 31789523 DOI: 10.1021/acs.molpharmaceut.9b00887] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The colloidal stability, in vitro toxicity, cell association, and in vivo pharmacokinetic behavior of liposomes decorated with monomethoxy-poly(ethylene glycol)-lipids (mPEG-lipids) with different chemical features were comparatively investigated. Structural differences of the mPEG-lipids used in the study included: (a) surface-anchoring moiety [1,2-distearoyl-sn-glycero-3-phosphoethanolamine (DSPE), cholesterol (Chol), and cholane (Chln)]; (b) mPEG molecular weight (2 kDa mPEG45 and 5 kDa mPEG114); and (c) mPEG shape (linear and branched PEG). In vitro results demonstrated that branched (mPEG114)2-DSPE confers the highest stealth properties to liposomes (∼31-fold lower cell association than naked liposomes) with respect to all PEGylating agents tested. However, the pharmacokinetic studies showed that the use of cholesterol as anchoring group yields PEGylated liposomes with longer permeance in the circulation and higher systemic bioavailability among the tested formulations. Liposomes decorated with mPEG114-Chol had 3.2- and ∼2.1-fold higher area under curve (AUC) than naked liposomes and branched (mPEG114)2-DSPE-coated liposomes, respectively, which reflects the high stability of this coating agent. By comparing the PEGylating agents with same size, namely, linear 5 kDa PEG derivatives, linear mPEG114-DSPE yielded coated liposomes with the best in vitro stealth performance. Nevertheless, the in vivo AUC of liposomes decorated with linear mPEG114-DSPE was lower than that obtained with liposomes decorated with linear mPEG114-Chol. Computational molecular dynamics modeling provided additional insights that complement the experimental results.
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Affiliation(s)
- Francesca Mastrotto
- Department of Pharmaceutical and Pharmacological Sciences , University of Padova , via F. Marzolo 5 , 35131 Padova , Italy
| | - Chiara Brazzale
- Department of Pharmaceutical and Pharmacological Sciences , University of Padova , via F. Marzolo 5 , 35131 Padova , Italy
| | - Federica Bellato
- Department of Pharmaceutical and Pharmacological Sciences , University of Padova , via F. Marzolo 5 , 35131 Padova , Italy
| | - Sara De Martin
- Department of Pharmaceutical and Pharmacological Sciences , University of Padova , via F. Marzolo 5 , 35131 Padova , Italy
| | - Guillaume Grange
- Drug Research Program, Faculty of Pharmacy , University of Helsinki , 00014 Helsinki , Finland
| | - Mohamad Mahmoudzadeh
- Drug Research Program, Faculty of Pharmacy , University of Helsinki , 00014 Helsinki , Finland
| | - Aniket Magarkar
- Institute of Organic Chemistry and Biochemistry , Academy of the Sciences of the Czech Republic , 166 10 Prague , Czech Republic
| | - Alex Bunker
- Drug Research Program, Faculty of Pharmacy , University of Helsinki , 00014 Helsinki , Finland
| | - Stefano Salmaso
- Department of Pharmaceutical and Pharmacological Sciences , University of Padova , via F. Marzolo 5 , 35131 Padova , Italy
| | - Paolo Caliceti
- Department of Pharmaceutical and Pharmacological Sciences , University of Padova , via F. Marzolo 5 , 35131 Padova , Italy
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13
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Koivuniemi A, Fallarero A, Bunker A. Insight into the antimicrobial mechanism of action of β 2,2-amino acid derivatives from molecular dynamics simulation: Dancing the can-can at the membrane surface. Biochim Biophys Acta Biomembr 2019; 1861:183028. [PMID: 31376362 DOI: 10.1016/j.bbamem.2019.07.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2019] [Revised: 07/20/2019] [Accepted: 07/22/2019] [Indexed: 01/01/2023]
Abstract
The development of antimicrobial agents that target and selectively disrupt biofilms is a pressing issue since, so far, no antibiotics have been developed that achieve this effectively. Previous experimental work has found a promising set of antibacterial peptides: β2,2-amino acid derivatives, relatively small molecules with common structural elements composed of a polar head group and two non-polar hydrocarbon arms. In order to develop insight into possible mechanisms of action of these novel antibacterial agents, we have performed an in silico investigation of four leading β2,2-amino acid derivatives, interacting with models of both bacterial (target) and eukaryotic (host) membranes, using molecular dynamics simulation with a model with all-atom resolution. We found an unexpected result that could shed light on the mechanism of action of these antimicrobial agents: the molecules assume a conformation where one of the hydrophobic arms is directed downward into the membrane core while the other is directed upwards, out of the membrane and exposed above the position of the membrane headgroups; we dubbed this conformation the "can-can pose". Intriguingly, the can-can pose was most closely linked to the choice of headgroup. Also, the compound previously found to be most effective against biofilms displayed the strongest extent of this behavior and, additionally, this behavior was more pronounced for this compound in the bacterial than in the eukaryotic membrane. We hypothesize that adopting the can-can pose could possibly disrupt the protective peptidoglycan macronet found on the exterior of the bacterial membrane.
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Affiliation(s)
- Artturi Koivuniemi
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | - Adyary Fallarero
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | - Alex Bunker
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland.
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14
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Abstract
![]()
We
assess the stability of two previously suggested binding modes
for the neuropeptide orexin-A in the OX2 receptor through
extensive molecular dynamics simulations. As the activation determinants
of the receptor remain unknown, we simulated an unliganded receptor
and two small-molecular ligands, the antagonist suvorexant and the
agonist Nag26 for comparison. Each system was simulated in pure POPC
membrane as well as in the 25% cholesterol–POPC membrane. In
total, we carried out 36 μs of simulations. Through this set
of simulations, we report a stable binding mode for the C-terminus
of orexin-A. In addition, we suggest interactions that would promote
orexin receptor activation, as well as others that would stabilize
the inactive state.
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Affiliation(s)
- Lasse Karhu
- Division of Pharmaceutical Chemistry and Technology, Faculty of Pharmacy , University of Helsinki , POB 56, FI-00014 Helsinki , Finland
| | - Aniket Magarkar
- Division of Pharmaceutical Biosciences, Faculty of Pharmacy , University of Helsinki , POB 56 , FI-00014 Helsinki , Finland
| | - Alex Bunker
- Division of Pharmaceutical Biosciences, Faculty of Pharmacy , University of Helsinki , POB 56 , FI-00014 Helsinki , Finland
| | - Henri Xhaard
- Division of Pharmaceutical Chemistry and Technology, Faculty of Pharmacy , University of Helsinki , POB 56, FI-00014 Helsinki , Finland
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15
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Belubbi T, Shevade S, Dhawan V, Sridhar V, Majumdar A, Nunes R, Araújo F, Sarmento B, Nagarsenker K, Steiniger F, Fahr A, Magarkar A, Bunker A, Nagarsenker M. Lipid Architectonics for Superior Oral Bioavailability of Nelfinavir Mesylate: Comparative in vitro and in vivo Assessment. AAPS PharmSciTech 2018; 19:3584-3598. [PMID: 30209788 DOI: 10.1208/s12249-018-1156-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2018] [Accepted: 08/18/2018] [Indexed: 11/30/2022] Open
Abstract
Nelfinavir mesylate (NFV), a human immunodeficiency virus (HIV) protease inhibitor, is an integral component of highly active anti retro viral therapy (HAART) for management of AIDS. NFV possesses pH-dependent solubility and has low and variable bioavailability hampering its use in therapeutics. Lipid-based particulates have shown to improve solubility of poorly water soluble drugs and oral absorption, thereby aiding in improved bioavailability. The current study compares potential of vesicular and solid lipid nanocarriers of NFV with drug nanocrystallites and microvesicular systems like cochleates in improving bioavailability of NFV. The paper outlines investigation of systems using in vitro models like in vitro lipolysis, in vitro release, and permeation through cell lines to predict the in vivo potential of nanocarriers. Finally, in vivo pharmacokinetic study is reported which provided proof of concept in sync with results from in vitro studies. Graphical Abstract ᅟ.
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16
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Virtanen T, Parkkila P, Koivuniemi A, Lahti J, Viitala T, Kallioinen M, Mänttäri M, Bunker A. Characterization of membrane–foulant interactions with novel combination of Raman spectroscopy, surface plasmon resonance and molecular dynamics simulation. Sep Purif Technol 2018. [DOI: 10.1016/j.seppur.2018.05.050] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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17
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Ambrosio E, Podmore A, Gomes dos Santos AL, Magarkar A, Bunker A, Caliceti P, Mastrotto F, van der Walle CF, Salmaso S. Control of Peptide Aggregation and Fibrillation by Physical PEGylation. Biomacromolecules 2018; 19:3958-3969. [DOI: 10.1021/acs.biomac.8b00887] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Elena Ambrosio
- Department of Pharmaceutical and Pharmacological Sciences, Università degli Studi di Padova, via F. Marzolo 5, 35131 Padova, Italy
| | - Adrian Podmore
- Formulation Sciences, MedImmune Ltd., Granta Park, Cambridge CB21 6GH, United Kingdom
| | | | - Aniket Magarkar
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, P.O. Box 56, Helsinki FI-00014, Finland
| | - Alex Bunker
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, P.O. Box 56, Helsinki FI-00014, Finland
| | - Paolo Caliceti
- Department of Pharmaceutical and Pharmacological Sciences, Università degli Studi di Padova, via F. Marzolo 5, 35131 Padova, Italy
| | - Francesca Mastrotto
- Department of Pharmaceutical and Pharmacological Sciences, Università degli Studi di Padova, via F. Marzolo 5, 35131 Padova, Italy
| | | | - Stefano Salmaso
- Department of Pharmaceutical and Pharmacological Sciences, Università degli Studi di Padova, via F. Marzolo 5, 35131 Padova, Italy
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18
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Kögler M, Paul A, Anane E, Birkholz M, Bunker A, Viitala T, Maiwald M, Junne S, Neubauer P. Comparison of time-gated surface-enhanced raman spectroscopy (TG-SERS) and classical SERS based monitoring of Escherichia coli cultivation samples. Biotechnol Prog 2018; 34:1533-1542. [PMID: 29882305 DOI: 10.1002/btpr.2665] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2017] [Revised: 05/16/2018] [Indexed: 01/08/2023]
Abstract
The application of Raman spectroscopy as a monitoring technique for bioprocesses is severely limited by a large background signal originating from fluorescing compounds in the culture media. Here, we compare time-gated Raman (TG-Raman)-, continuous wave NIR-process Raman (NIR-Raman), and continuous wave micro-Raman (micro-Raman) approaches in combination with surface enhanced Raman spectroscopy (SERS) for their potential to overcome this limit. For that purpose, we monitored metabolite concentrations of Escherichia coli bioreactor cultivations in cell-free supernatant samples. We investigated concentration transients of glucose, acetate, AMP, and cAMP at alternating substrate availability, from deficiency to excess. Raman and SERS signals were compared to off-line metabolite analysis of carbohydrates, carboxylic acids, and nucleotides. Results demonstrate that SERS, in almost all cases, led to a higher number of identifiable signals and better resolved spectra. Spectra derived from the TG-Raman were comparable to those of micro-Raman resulting in well-discernable Raman peaks, which allowed for the identification of a higher number of compounds. In contrast, NIR-Raman provided a superior performance for the quantitative evaluation of analytes, both with and without SERS nanoparticles when using multivariate data analysis. © 2018 American Institute of Chemical Engineers Biotechnol. Prog., 34:1533-1542, 2018.
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Affiliation(s)
- Martin Kögler
- Chair of Bioprocess Engineering, Department of Biotechnology, Technische Universität Berlin, Ackerstr. 76 ACK24, Berlin, D-13355, Germany.,Drug Research Program, Faculty of Pharmacy, Division of Pharmaceutical Biosciences, University of Helsinki, Helsinki, Finland, 00014
| | - Andrea Paul
- Bundesanstalt für Materialforschung und -prüfung (BAM), Richard-Willstätter-Straße 11, Berlin, D-12489, Germany
| | - Emmanuel Anane
- Chair of Bioprocess Engineering, Department of Biotechnology, Technische Universität Berlin, Ackerstr. 76 ACK24, Berlin, D-13355, Germany
| | - Mario Birkholz
- IHP, Im Technologiepark 25, Frankfurt, Oder, 15236, Germany
| | - Alex Bunker
- Drug Research Program, Faculty of Pharmacy, Division of Pharmaceutical Biosciences, University of Helsinki, Helsinki, Finland, 00014
| | - Tapani Viitala
- Drug Research Program, Faculty of Pharmacy, Division of Pharmaceutical Biosciences, University of Helsinki, Helsinki, Finland, 00014
| | - Michael Maiwald
- Bundesanstalt für Materialforschung und -prüfung (BAM), Richard-Willstätter-Straße 11, Berlin, D-12489, Germany
| | - Stefan Junne
- Chair of Bioprocess Engineering, Department of Biotechnology, Technische Universität Berlin, Ackerstr. 76 ACK24, Berlin, D-13355, Germany
| | - Peter Neubauer
- Chair of Bioprocess Engineering, Department of Biotechnology, Technische Universität Berlin, Ackerstr. 76 ACK24, Berlin, D-13355, Germany
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19
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Lajunen T, Nurmi R, Wilbie D, Ruoslahti T, Johansson NG, Korhonen O, Rog T, Bunker A, Ruponen M, Urtti A. The effect of light sensitizer localization on the stability of indocyanine green liposomes. J Control Release 2018; 284:213-223. [DOI: 10.1016/j.jconrel.2018.06.029] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2018] [Revised: 06/19/2018] [Accepted: 06/25/2018] [Indexed: 10/28/2022]
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20
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Parkkila P, Elderdfi M, Bunker A, Viitala T. Biophysical Characterization of Supported Lipid Bilayers Using Parallel Dual-Wavelength Surface Plasmon Resonance and Quartz Crystal Microbalance Measurements. Langmuir 2018; 34:8081-8091. [PMID: 29894192 PMCID: PMC6203186 DOI: 10.1021/acs.langmuir.8b01259] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2018] [Revised: 05/29/2018] [Indexed: 05/30/2023]
Abstract
Supported lipid bilayers (SLBs) have been used extensively as an effective model of biological membranes, in the context of in vitro biophysics research, and the membranes of liposomes, in the context of the development of nanoscale drug delivery devices. Despite numerous surface-sensitive techniques having been applied to their study, the comprehensive optical characterization of SLBs using surface plasmon resonance (SPR) has not been conducted. In this study, Fresnel multilayer analysis is utilized to effectively calculate layer parameters (thickness and refractive indices) with the aid of dual-wavelength and dispersion coefficient analysis, in which the linear change in the refractive index as a function of wavelength is assumed. Using complementary information from impedance-based quartz crystal microbalance experiments, biophysical properties, for example, area-per-lipid-molecule and the quantity of lipid-associated water molecules, are calculated for different lipid types and mixtures, one of which is representative of a raft-forming lipid mixture. It is proposed that the hydration layer beneath the bilayer is, in fact, an integral part of the measured optical signal. Also, the traditional Jung model analysis and the ratio of SPR responses are investigated in terms of assessing the structure of the lipid layer that is formed.
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Affiliation(s)
- Petteri Parkkila
- Drug
Research Program, Division of Pharmaceutical Biosciences, Faculty
of Pharmacy, University of Helsinki, 00014 Helsinki, Finland
| | - Mohamed Elderdfi
- Department
of Cytobiochemistry, Faculty of Biotechnology, University of Wrocław, 50-383 Wrocław, Poland
| | - Alex Bunker
- Drug
Research Program, Division of Pharmaceutical Biosciences, Faculty
of Pharmacy, University of Helsinki, 00014 Helsinki, Finland
| | - Tapani Viitala
- Drug
Research Program, Division of Pharmaceutical Biosciences, Faculty
of Pharmacy, University of Helsinki, 00014 Helsinki, Finland
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21
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Magarkar A, Parkkila P, Viitala T, Lajunen T, Mobarak E, Licari G, Cramariuc O, Vauthey E, Róg T, Bunker A. Membrane bound COMT isoform is an interfacial enzyme: general mechanism and new drug design paradigm. Chem Commun (Camb) 2018; 54:3440-3443. [DOI: 10.1039/c8cc00221e] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
We have determined the substrate differentiation mechanism between the membrane bound and water soluble isoforms of important drug target catechol-O-methyltransferase.
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22
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Preem L, Mahmoudzadeh M, Putrinš M, Meos A, Laidmäe I, Romann T, Aruväli J, Härmas R, Koivuniemi A, Bunker A, Tenson T, Kogermann K. Interactions between Chloramphenicol, Carrier Polymers, and Bacteria–Implications for Designing Electrospun Drug Delivery Systems Countering Wound Infection. Mol Pharm 2017; 14:4417-4430. [DOI: 10.1021/acs.molpharmaceut.7b00524] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- Liis Preem
- Institute
of Pharmacy, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
| | - Mohammad Mahmoudzadeh
- Drug
research program, Division of Pharmaceutical Biosciences, Faculty
of Pharmacy, University of Helsinki, Viikinkaari 5E,
P.O. Box 56, FI-00014 Helsinki, Finland
| | - Marta Putrinš
- Institute
of Technology, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
| | - Andres Meos
- Institute
of Pharmacy, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
| | - Ivo Laidmäe
- Institute
of Pharmacy, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
| | - Tavo Romann
- Institute
of Chemistry, University of Tartu, Ravila 14a, 50411 Tartu, Estonia
| | - Jaan Aruväli
- Institute
of Ecology and Earth Sciences, University of Tartu, Ravila 14a, 50411 Tartu, Estonia
| | - Riinu Härmas
- Institute
of Chemistry, University of Tartu, Ravila 14a, 50411 Tartu, Estonia
| | - Artturi Koivuniemi
- Drug
research program, Division of Pharmaceutical Biosciences, Faculty
of Pharmacy, University of Helsinki, Viikinkaari 5E,
P.O. Box 56, FI-00014 Helsinki, Finland
| | - Alex Bunker
- Drug
research program, Division of Pharmaceutical Biosciences, Faculty
of Pharmacy, University of Helsinki, Viikinkaari 5E,
P.O. Box 56, FI-00014 Helsinki, Finland
| | - Tanel Tenson
- Institute
of Technology, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
| | - Karin Kogermann
- Institute
of Pharmacy, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
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23
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Hilt S, Rojalin T, Viitala T, Koivuniemi A, Bunker A, Hogiu SW, Kálai T, Hideg K, Yliperttula M, Voss JC. Oligomerization Alters Binding Affinity Between Amyloid Beta and a Modulator of Peptide Aggregation. J Phys Chem C Nanomater Interfaces 2017; 121:23974-23987. [PMID: 30214656 PMCID: PMC6130836 DOI: 10.1021/acs.jpcc.7b06164] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The soluble oligomeric form of the amyloid beta (Aβ) peptide is the major causative agent in the molecular pathogenesis of Alzheimer's disease (AD). We have previously developed a pyrroline-nitroxyl fluorene compound (SLF) that blocks the toxicity of Aβ. Here we introduce the multi-parametric surface plasmon resonance (MP-SPR) approach to quantify SLF binding and effect on the self-association of the peptide via a label-free, real-time approach. Kinetic analysis of SLF binding to Aβ and measurements of layer thickness alterations inform on the mechanism underlying the ability of SLF to inhibit Aβ toxicity and its progression towards larger oligomeric assemblies. Depending on the oligomeric state of Aβ, distinct binding affinities for SLF are revealed. The Aβ monomer and dimer uniquely possess sub-nanomolar affinity for SLF via a non-specific mode of binding. SLF binding is weaker in oligomeric Aβ, which displays an affinity for SLF on the order of 100 μM. To complement these experiments we carried out molecular docking and molecular dynamics simulations to explore how SLF interacts with the Aβ peptide. The MP-SPR results together with in silico modeling provide affinity data for the SLF-Aβ interaction and allow us to develop a new general method for examining protein aggregation.
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Affiliation(s)
- Silvia Hilt
- Department of Biochemistry & Molecular Medicine, University of California, Davis, CA 95616, USA
| | - Tatu Rojalin
- Department of Pathology and Laboratory Medicine, and Center for Biophotonics, University of California Davis, USA
- Centre for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, Finland
| | - Tapani Viitala
- Centre for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, Finland
| | - Artturi Koivuniemi
- Centre for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, Finland
| | - Alex Bunker
- Centre for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, Finland
| | - Sebastian Wachsmann Hogiu
- Department of Pathology and Laboratory Medicine, and Center for Biophotonics, University of California Davis, USA
- Intellectual Ventures/Global Good, Bellevue, WA, USA
| | - Tamás Kálai
- Institute of Organic and Medicinal Chemistry, University of Pécs, H 7624 Pécs, Szigeti st. 12. Pécs, Hungary
| | - Kálmán Hideg
- Institute of Organic and Medicinal Chemistry, University of Pécs, H 7624 Pécs, Szigeti st. 12. Pécs, Hungary
| | - Marjo Yliperttula
- Centre for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, Finland
- Department of Pharmaceutical Sciences, University of Padova, Italy
| | - John C. Voss
- Department of Biochemistry & Molecular Medicine, University of California, Davis, CA 95616, USA
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24
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Capasso C, Magarkar A, Cervera-Carrascon V, Fusciello M, Feola S, Muller M, Garofalo M, Kuryk L, Tähtinen S, Pastore L, Bunker A, Cerullo V. A novel in silico framework to improve MHC-I epitopes and break the tolerance to melanoma. Oncoimmunology 2017; 6:e1319028. [PMID: 28932628 DOI: 10.1080/2162402x.2017.1319028] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2017] [Revised: 04/05/2017] [Accepted: 04/07/2017] [Indexed: 12/21/2022] Open
Abstract
Tolerance toward tumor antigens, which are shared by normal tissues, have often limited the efficacy of cancer vaccines. However, wild type epitopes can be tweaked to activate cross-reactive T-cell clones, resulting in antitumor activity. The design of these analogs (i.e., heteroclitic peptides) can be difficult and time-consuming since no automated in silico tools are available. Hereby we describe the development of an in silico framework to improve the selection of heteroclitic peptides. The Epitope Discovery and Improvement System (EDIS) was first validated by studying the model antigen SIINFEKL. Based on artificial neural network (ANN) predictions, we selected two mutant analogs that are characterized by an increased MHC-I binding affinity (SIINFAKL) or increased TCR stimulation (SIIWFEKL). Therapeutic vaccination using optimized peptides resulted in enhanced antitumor activity and against B16.OVA melanomas in vivo. The translational potential of the EDIS platform was further demonstrated by studying the melanoma-associated antigen tyrosinase related protein 2 (TRP2). Following therapeutic immunization with the EDIS-derived epitope SVYDFFAWL, a significant reduction in the growth of established B16.F10 tumors was observed, suggesting a break in the tolerance toward the wild type epitope. Finally, we tested a multi vaccine approach, demonstrating that combination of wild type and mutant epitopes targeting both TRP2 and OVA antigens increases the antitumor response. In conclusion, by taking advantage of available prediction servers and molecular dynamics simulations, we generated an innovative platform for studying the initial sequences and selecting lead candidates with improved immunological features. Taken together, EDIS is the first automated algorithm-driven platform to speed up the design of heteroclitic peptides that can be publicly queried online.
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Affiliation(s)
- Cristian Capasso
- Laboratory of Immunovirotherapy, Drug Research Program, University of Helsinki, Helsinki, Finland
| | - Aniket Magarkar
- Centre for Drug Research at the Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland.,Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic, Prague 6, Czech Republic
| | - Victor Cervera-Carrascon
- TILT Biotherapeutics, Helsinki, Finland.,Cancer Gene Therapy Group, Department of Oncology, Faculty of Medicine, University Helsinki, Helsinki, Finland
| | - Manlio Fusciello
- Laboratory of Immunovirotherapy, Drug Research Program, University of Helsinki, Helsinki, Finland
| | - Sara Feola
- Department of Molecular Medicine and Medical Biotechnologies, University of Naples "Federico II", Naples, Italy
| | - Martin Muller
- Department of Pharmacy - Center for Drug Research, Pharmaceutical Biology, Ludwig-Maximilians University of Munich, Munich, Germany
| | - Mariangela Garofalo
- Centre for Drug Research at the Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | | | - Siri Tähtinen
- Laboratory of Immunovirotherapy, Drug Research Program, University of Helsinki, Helsinki, Finland
| | - Lucio Pastore
- Department of Molecular Medicine and Medical Biotechnologies, University of Naples "Federico II", Naples, Italy.,CEINGE-Biotecnologie Avanzate S.C. a R.L., Naples, Italy
| | - Alex Bunker
- Laboratory of Immunovirotherapy, Drug Research Program, University of Helsinki, Helsinki, Finland
| | - Vincenzo Cerullo
- Laboratory of Immunovirotherapy, Drug Research Program, University of Helsinki, Helsinki, Finland
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25
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Magarkar A, Róg T, Bunker A. A computational study suggests that replacing PEG with PMOZ may increase exposure of hydrophobic targeting moiety. Eur J Pharm Sci 2017; 103:128-135. [PMID: 28285174 DOI: 10.1016/j.ejps.2017.03.008] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2016] [Revised: 02/28/2017] [Accepted: 03/07/2017] [Indexed: 12/18/2022]
Abstract
In a previous study we showed that the cause of failure of a new, proposed, targeting ligand, the AETP moiety, when attached to a PEGylated liposome, was occlusion by the poly(ethylene glycol) (PEG) layer due to its hydrophobic nature, given that PEG is not entirely hydrophilic. At the time we proposed that possible replacement with a more hydrophilic protective polymer could alleviate this problem. In this study we have used computational molecular dynamics modelling, using a model with all atom resolution, to suggest that a specific alternative protective polymer, poly(2-methyloxazoline) (PMOZ), would perform exactly this function. Our results show that when PEG is replaced by PMOZ the relative exposure to the solvent of AETP is increased to a level even greater than that we found in previous simulations for the RGD peptide, a targeting moiety that has previously been used successfully in PEGylated liposome based therapies. While the AETP moiety itself is no longer under consideration, the results of this computational study have broader significance: the use of PMOZ as an alternative polymer coating to PEG could be efficacious in the context of more hydrophobic targeting ligands. In addition to PMOZ we studied another polyoxazoline, poly(2-ethyloxazoline) (PEOZ), that has also been mooted as a possible alternate protective polymer. It was also found that the RDG peptide occlusion was significantly greater for the case of both oxazolines as opposed to PEG and that, unlike PEG, neither oxazoline entered the membrane. As far as we are aware this is the first time that polyoxazolines have been studied using molecular dynamics simulation with all atom resolution.
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Affiliation(s)
- Aniket Magarkar
- Drug Research Program, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland; Institute of Organic Chemistry and Biochemistry, Academy of the Sciences of the Czech Republic Prague, Czech Republic
| | - Tomasz Róg
- Department of Physics, University of Helsinki, Helsinki, Finland
| | - Alex Bunker
- Drug Research Program, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland.
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Dzieciuch-Rojek M, Poojari C, Bednar J, Bunker A, Kozik B, Nowakowska M, Vattulainen I, Wydro P, Kepczynski M, Róg T. Effects of Membrane PEGylation on Entry and Location of Antifungal Drug Itraconazole and Their Pharmacological Implications. Mol Pharm 2017; 14:1057-1070. [PMID: 28234487 DOI: 10.1021/acs.molpharmaceut.6b00969] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Itraconazole (ITZ) is an antifungal agent used clinically to treat mycotic infections. However, its therapeutic effects are limited by low solubility in aqueous media. Liposome-based delivery systems (LDS) have been proposed as a delivery mechanism for ITZ to alleviate this problem. Furthermore, PEGylation, the inclusion in the formulation of a protective "stealth sheath" of poly(ethylene glycol) around carrier particles, is widely used to increase circulation time in the bloodstream and hence efficacy. Together, these themes highlight the importance of mechanistic and structural understanding of ITZ incorporation into liposomes both with and without PEGylation because it can provide a potential foundation for the rational design of LDS-based systems for delivery of ITZ, using alternate protective polymers or formulations. Here we have combined atomistic simulations, cryo-TEM, Langmuir film balance, and fluorescence quenching experiments to explore how ITZ interacts with both pristine and PEGylated liposomes. We found that the drug can be incorporated into conventional and PEGylated liposomes for drug concentrations up to 15 mol % without phase separation. We observed that, in addition to its protective properties, PEGylation significantly increases the stability of liposomes that host ITZ. In a 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) bilayer without PEGylation, ITZ was found to reside inside the lipid bilayer between the glycerol and the double-bond regions of POPC, adopting a largely parallel orientation along the membrane surface. In a PEGylated liposome, ITZ partitions mainly to the PEG layer. The results provide a solid basis for further development of liposome-based delivery systems.
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Affiliation(s)
| | - Chetan Poojari
- Department of Physics, Tampere University of Technology , P.O. Box 692, FI-33101 Tampere, Finland
| | - Jan Bednar
- Université de Grenoble Alpes/CNRS, Institut Albert Bonniot , UMR 5309, 38042 CEDEX 9 Grenoble, France.,First Faculty of Medicine, Laboratory of Biology and Pathology of the Eye, Institute of Inherited Metabolic Disorders, Charles University in Prague , KeKarlovu 2, 12800 Prague 2, Czech Republic
| | - Alex Bunker
- Centre for Drug Research, Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki , FI-00014 Helsinki, Finland
| | - Bartłomiej Kozik
- Faculty of Chemistry, Jagiellonian University , Ingardena 3, 30-060 Kraków, Poland
| | - Maria Nowakowska
- Faculty of Chemistry, Jagiellonian University , Ingardena 3, 30-060 Kraków, Poland
| | - Ilpo Vattulainen
- Department of Physics, Tampere University of Technology , P.O. Box 692, FI-33101 Tampere, Finland.,Department of Physics, University of Helsinki , P.O. Box 64, FI-00014 Helsinki, Finland.,MEMPHYS-Center for Biomembrane Physics, University of Southern Denmark , Odense, Denmark
| | - Paweł Wydro
- Faculty of Chemistry, Jagiellonian University , Ingardena 3, 30-060 Kraków, Poland
| | - Mariusz Kepczynski
- Faculty of Chemistry, Jagiellonian University , Ingardena 3, 30-060 Kraków, Poland
| | - Tomasz Róg
- Department of Physics, Tampere University of Technology , P.O. Box 692, FI-33101 Tampere, Finland.,Department of Physics, University of Helsinki , P.O. Box 64, FI-00014 Helsinki, Finland
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Wilkosz N, Rissanen S, Cyza M, Szybka R, Nowakowska M, Bunker A, Róg T, Kepczynski M. Effect of piroxicam on lipid membranes: Drug encapsulation and gastric toxicity aspects. Eur J Pharm Sci 2017; 100:116-125. [DOI: 10.1016/j.ejps.2017.01.007] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2016] [Revised: 01/09/2017] [Accepted: 01/09/2017] [Indexed: 01/11/2023]
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28
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Capasso C, Magarkar A, Cervera Carrascon V, Müller M, Garofalo M, Kuryk L, Fusciello M, Ylösmäki E, Bunker A, Cerullo V. Enhanced anti-cancer vaccines with a new epitope improvement system. Ann Oncol 2016. [DOI: 10.1093/annonc/mdw525.03] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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29
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Bunker A, Magarkar A, Viitala T. Rational design of liposomal drug delivery systems, a review: Combined experimental and computational studies of lipid membranes, liposomes and their PEGylation. Biochimica et Biophysica Acta (BBA) - Biomembranes 2016; 1858:2334-2352. [DOI: 10.1016/j.bbamem.2016.02.025] [Citation(s) in RCA: 103] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2015] [Revised: 02/09/2016] [Accepted: 02/10/2016] [Indexed: 01/22/2023]
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Pathak P, Dhawan V, Magarkar A, Danne R, Govindarajan S, Ghosh S, Steiniger F, Chaudhari P, Gopal V, Bunker A, Róg T, Fahr A, Nagarsenker M. Design of cholesterol arabinogalactan anchored liposomes for asialoglycoprotein receptor mediated targeting to hepatocellular carcinoma: In silico modeling, in vitro and in vivo evaluation. Int J Pharm 2016; 509:149-158. [PMID: 27231122 DOI: 10.1016/j.ijpharm.2016.05.041] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2016] [Revised: 05/14/2016] [Accepted: 05/21/2016] [Indexed: 02/06/2023]
Abstract
We have developed active targeting liposomes to deliver anticancer agents to ASGPR which will contribute to effective treatment of hepatocellular carcinoma. Active targeting is achieved through polymeric ligands on the liposome surface. The liposomes were prepared using reverse phase evaporation method and doxorubicin hydrocholoride, a model drug, was loaded using the ammonium sulphate gradient method. Liposomes loaded with DOX were found to have a particle size of 200nm with more than 90% entrapment efficiency. Systems were observed to release the drug in a sustained manner in acidic pH in vitro. Liposomes containing targeting ligands possessed greater and selective toxicity to ASGPR positive HepG2 cell lines due to specific ligand receptor interaction. Bio-distribution studies revealed that liposomes were concentrated in the liver even after 3h of administration, thus providing conclusive evidence of targeting potential for formulated nanosystems. Tumor regression studies indicated greater tumor suppression with targeted liposomes thereby establishing superiority of the liposomal system. In this work, we used a novel methodology to guide the determination of the optimal composition of the targeting liposomes: molecular dynamics (MD) simulation that aided our understanding of the behaviour of the ligand within the bilayer. This can be seen as a demonstration of the utility of this methodology as a rational design tool for active targeting liposome formulation.
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Affiliation(s)
- Pankaj Pathak
- Bombay College of Pharmacy, University of Mumbai, Mumbai 400098, India
| | - Vivek Dhawan
- Bombay College of Pharmacy, University of Mumbai, Mumbai 400098, India
| | - Aniket Magarkar
- Academy of the Sciences of the Czech Republic, Prague, Czech Republic; Centre for Drug Research, Division of Pharmaceutical Bioscience, Faculty of Pharmacy, University of Helsinki, FI-00014 Helsinki, Finland
| | - Reinis Danne
- Department of Physics, Tampere University of Technology, PO Box 692, FI-33101 Tampere, Finland
| | - Srinath Govindarajan
- Council of Scientific and Industrial Research-Centre for Cellular and Molecular Biology (CSIR-CCMB), Hyderabad 500007, India
| | - Sandipto Ghosh
- Small Animal Imaging Facility (SAIF), Advanced Centre for Treatment Research and Education in Cancer (ACTREC), Kharghar, Mumbai 410210, India
| | - Frank Steiniger
- Center for Electron Microscopy of the Medical Faculty, Friedrich-Schiller-University Jena, Ziegelmühlenweg 1, D-07740 Jena, Germany
| | - Pradip Chaudhari
- Small Animal Imaging Facility (SAIF), Advanced Centre for Treatment Research and Education in Cancer (ACTREC), Kharghar, Mumbai 410210, India
| | - Vijaya Gopal
- Council of Scientific and Industrial Research-Centre for Cellular and Molecular Biology (CSIR-CCMB), Hyderabad 500007, India
| | - Alex Bunker
- Centre for Drug Research, Division of Pharmaceutical Bioscience, Faculty of Pharmacy, University of Helsinki, FI-00014 Helsinki, Finland
| | - Tomasz Róg
- Department of Physics, Tampere University of Technology, PO Box 692, FI-33101 Tampere, Finland
| | - Alfred Fahr
- Department of Pharmaceutical Technology, Friedrich-Schiller-University Jena, Lessing-str. 8, D-07743 Jena, Germany
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Capasso C, Magarkar A, Carrascon VC, Muller M, Garofalo M, Kuryk L, Cardella D, Peltonen K, Bunker A, Cerullo V. 642. Oncolytic Vaccines with Modified Tumor Epitopes for Cancer Immunotherapy. Mol Ther 2016. [DOI: 10.1016/s1525-0016(16)33450-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
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32
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Lajunen T, Kontturi LS, Viitala L, Manna M, Cramariuc O, Róg T, Bunker A, Laaksonen T, Viitala T, Murtomäki L, Urtti A. Indocyanine Green-Loaded Liposomes for Light-Triggered Drug Release. Mol Pharm 2016; 13:2095-107. [DOI: 10.1021/acs.molpharmaceut.6b00207] [Citation(s) in RCA: 87] [Impact Index Per Article: 10.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Tatu Lajunen
- Centre
for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, FI-00014 Helsinki, Finland
| | - Leena-Stiina Kontturi
- Centre
for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, FI-00014 Helsinki, Finland
- Department
of Pharmaceutics, Utrecht Institute of Pharmaceutical Sciences (UIPS), Utrecht University, Universiteitsweg 99, 3584 CG Utrecht, The Netherlands
| | - Lauri Viitala
- Department
of Chemistry, Aalto University, P.O. Box 16100, FI-00076 Aalto, Finland
| | - Moutusi Manna
- Department
of Physics, Tampere University of Technology, P.O. Box 692, FI-33101 Tampere, Finland
| | - Oana Cramariuc
- Department
of Physics, Tampere University of Technology, P.O. Box 692, FI-33101 Tampere, Finland
| | - Tomasz Róg
- Department
of Physics, Tampere University of Technology, P.O. Box 692, FI-33101 Tampere, Finland
- Department
of Physics, University of Helsinki, P.O. Box 64, FI-00014 Helsinki, Finland
| | - Alex Bunker
- Centre
for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, FI-00014 Helsinki, Finland
| | - Timo Laaksonen
- Centre
for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, FI-00014 Helsinki, Finland
- Department
of Chemistry and Bioengineering, Tampere University of Technology, P.O. Box 541, FI-33101 Tampere, Finland
| | - Tapani Viitala
- Centre
for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, FI-00014 Helsinki, Finland
| | - Lasse Murtomäki
- Department
of Chemistry, Aalto University, P.O. Box 16100, FI-00076 Aalto, Finland
| | - Arto Urtti
- Centre
for Drug Research, Division of Pharmaceutical Biosciences, University of Helsinki, P.O. Box 56, FI-00014 Helsinki, Finland
- School
of
Pharmacy, University of Eastern Finland, P.O. Box 1627, FI-70211 Kuopio, Finland
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Uusitalo S, Kögler M, Välimaa AL, Popov A, Ryabchikov Y, Kontturi V, Siitonen S, Petäjä J, Virtanen T, Laitinen R, Kinnunen M, Meglinski I, Kabashin A, Bunker A, Viitala T, Hiltunen J. Detection of Listeria innocua on roll-to-roll produced SERS substrates with gold nanoparticles. RSC Adv 2016. [DOI: 10.1039/c6ra08313g] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The rapid and accurate detection of food pathogens plays a critical role in the early prevention of foodborne epidemics. Combination of low cost sensing platforms and SERS detection can offer a solution for the pathogen detection.
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Dhawan V, Magarkar A, Joshi G, Makhija D, Jain A, Shah J, Reddy BVV, Krishnapriya M, Róg T, Bunker A, Jagtap A, Nagarsenker M. Stearylated cycloarginine nanosystems for intracellular delivery – simulations, formulation and proof of concept. RSC Adv 2016. [DOI: 10.1039/c6ra16432c] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Novel cationic agent liposomes performed better in silico translating in higher cellular uptake with reduced toxicity.
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Capasso C, Hirvinen M, Garofalo M, Romaniuk D, Kuryk L, Sarvela T, Vitale A, Antopolsky M, Magarkar A, Viitala T, Suutari T, Bunker A, Yliperttula M, Urtti A, Cerullo V. Oncolytic adenoviruses coated with MHC-I tumor epitopes for a new oncolytic vaccine platform. J Immunother Cancer 2015. [PMCID: PMC4649305 DOI: 10.1186/2051-1426-3-s2-p333] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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36
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Capasso C, Hirvinen M, Garofalo M, Romaniuk D, Kuryk L, Sarvela T, Vitale A, Antopolsky M, Magarkar A, Viitala T, Suutari T, Bunker A, Yliperttula M, Urtti A, Cerullo V. Oncolytic adenoviruses coated with MHC-I tumor epitopes increase the antitumor immunity and efficacy against melanoma. Oncoimmunology 2015; 5:e1105429. [PMID: 27141389 PMCID: PMC4839367 DOI: 10.1080/2162402x.2015.1105429] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2015] [Revised: 09/11/2015] [Accepted: 10/04/2015] [Indexed: 11/06/2022] Open
Abstract
The stimulation of the immune system using oncolytic adenoviruses (OAds) has attracted significant interest and several studies suggested that OAds immunogenicity might be important for their efficacy. Therefore, we developed a versatile and rapid system to adsorb tumor-specific major histocompatibility complex class I (MHC-I) peptides onto the viral surface to drive the immune response toward the tumor epitopes. By studying the model epitope SIINFEKL, we demonstrated that the peptide-coated OAd (PeptiCRAd) retains its infectivity and the cross presentation of the modified-exogenous epitope on MHC-I is not hindered. We then showed that the SIINFEKL-targeting PeptiCRAd achieves a superior antitumor efficacy and increases the percentage of antitumor CD8+ T cells and mature epitope-specific dendritic cells in vivo. PeptiCRAds loaded with clinically relevant tumor epitopes derived from tyrosinase-related protein 2 (TRP-2) and human gp100 could reduce the growth of primary-treated tumors and secondary-untreated melanomas, promoting the expansion of antigen-specific T-cell populations. Finally, we tested PeptiCRAd in humanized mice bearing human melanomas. In this model, a PeptiCRAd targeting the human melanoma-associated antigen A1 (MAGE-A1) and expressing granulocyte and macrophage colony-stimulating factor (GM-CSF) was able to eradicate established tumors and increased the human MAGE-A1-specific CD8+ T cell population. Herein, we show that the immunogenicity of OAds plays a key role in their efficacy and it can be exploited to direct the immune response system toward exogenous tumor epitopes. This versatile and rapid system overcomes the immunodominance of the virus and elicits a tumor-specific immune response, making PeptiCRAd a promising approach for clinical testing.
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Affiliation(s)
- Cristian Capasso
- Laboratory of Immunovirotherapy, Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Mari Hirvinen
- Laboratory of Immunovirotherapy, Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Mariangela Garofalo
- Laboratory of Immunovirotherapy, Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki, Viikinkaari 5, Helsinki, Finland; Department of Molecular Medicine and Medical Biotechnology, University of Naples "Federico II", Via Pansini, Naples, Italy
| | - Dmitrii Romaniuk
- Laboratory of Immunovirotherapy, Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Lukasz Kuryk
- Laboratory of Immunovirotherapy, Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Teea Sarvela
- Laboratory of Immunovirotherapy, Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Andrea Vitale
- Department of Movement Sciences and Wellness (DiSMEB), University of Naples Parthenope, Via Medina 40, Naples, Italy, CEINGE-Biotecnologie Avanzate , Via G. Salvatore 486 , Naples, Italy
| | - Maxim Antopolsky
- Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Aniket Magarkar
- Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Tapani Viitala
- Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Teemu Suutari
- Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Alex Bunker
- Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Marjo Yliperttula
- Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
| | - Arto Urtti
- Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki, Viikinkaari 5, Helsinki, Finland; School of Pharmacy, University of Eastern Finland, Yliopistonranta 1, Kuopio, Finland
| | - Vincenzo Cerullo
- Laboratory of Immunovirotherapy, Division of Pharmaceutical Biosciences and Center for Drug Research, University of Helsinki , Viikinkaari 5 , Helsinki, Finland
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Dzieciuch M, Rissanen S, Szydłowska N, Bunker A, Kumorek M, Jamróz D, Vattulainen I, Nowakowska M, Róg T, Kepczynski M. PEGylated Liposomes as Carriers of Hydrophobic Porphyrins. J Phys Chem B 2015; 119:6646-57. [DOI: 10.1021/acs.jpcb.5b01351] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Monika Dzieciuch
- Faculty
of Chemistry, Jagiellonian University, Krakow 31-007, Poland
| | - Sami Rissanen
- Department
of Physics, Tampere University of Technology, Tampere 33720, Finland
| | | | - Alex Bunker
- Centre
for Drug Research, Faculty of Pharmacy, University of Helsinki, Helsinki 00100, Finland
| | - Marta Kumorek
- Faculty
of Chemistry, Jagiellonian University, Krakow 31-007, Poland
| | - Dorota Jamróz
- Faculty
of Chemistry, Jagiellonian University, Krakow 31-007, Poland
| | - Ilpo Vattulainen
- Department
of Physics, Tampere University of Technology, Tampere 33720, Finland
- MEMPHYS-Center
for Biomembrane Physics, University of Southern Denmark, Odense 5230, Denmark
| | - Maria Nowakowska
- Faculty
of Chemistry, Jagiellonian University, Krakow 31-007, Poland
| | - Tomasz Róg
- Department
of Physics, Tampere University of Technology, Tampere 33720, Finland
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38
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Magarkar A, Dhawan V, Kallinteri P, Viitala T, Elmowafy M, Róg T, Bunker A. Cholesterol level affects surface charge of lipid membranes in saline solution. Sci Rep 2014; 4:5005. [PMID: 24845659 PMCID: PMC4028897 DOI: 10.1038/srep05005] [Citation(s) in RCA: 120] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2013] [Accepted: 05/01/2014] [Indexed: 12/19/2022] Open
Abstract
Cholesterol is an important component of all biological membranes as well as drug delivery liposomes. We show here that increasing the level of cholesterol in a phospholipid membrane decreases surface charge in the physiological environment. Through molecular dynamics simulation we have shown that increasing the level of cholesterol decreases Na+ ion binding. Complementary experimental ζ--potential measurements have shown a decreased ζ--potential with increasing cholesterol content, indicative of reduced surface charge. Both experiments and simulations have been carried out on both saturated 1,2-distearoyl-sn-glycero-3-phosphocholine (DSPC) and monounsaturated 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) membranes. This result is particularly important because membrane surface charge plays an important role in the interactions of biomembranes with peripheral membrane proteins and drug delivery liposomes with the immune system.
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Affiliation(s)
- Aniket Magarkar
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | - Vivek Dhawan
- Bombay College of Pharmacy, University of Mumbai, Mumbai, India
| | - Paraskevi Kallinteri
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | - Tapani Viitala
- Division of Biopharmaceutics and Pharmacokinetics, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | - Mohammed Elmowafy
- Division of Biopharmaceutics and Pharmacokinetics, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
| | - Tomasz Róg
- Department of Physics, Tampere University of Technology, Tampere, Finland
| | - Alex Bunker
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, Helsinki, Finland
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Rissanen S, Kumorek M, Martinez-Seara H, Li YC, Jamróz D, Bunker A, Nowakowska M, Vattulainen I, Kepczynski M, Róg T. Effect of PEGylation on Drug Entry into Lipid Bilayer. J Phys Chem B 2013; 118:144-51. [DOI: 10.1021/jp4105745] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sami Rissanen
- Department
of Physics, Tampere University of Technology, PO Box 692, FI-33101 Tampere, Finland
| | - Marta Kumorek
- Faculty
of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Kraków, Poland
| | - Hector Martinez-Seara
- Department
of Physics, Tampere University of Technology, PO Box 692, FI-33101 Tampere, Finland
| | - Yen-Chin Li
- Centre
for Drug Research, Faculty of Pharmacy, University of Helsinki, FI-00014 Helsinki, Finland
| | - Dorota Jamróz
- Faculty
of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Kraków, Poland
| | - Alex Bunker
- Centre
for Drug Research, Faculty of Pharmacy, University of Helsinki, FI-00014 Helsinki, Finland
| | - Maria Nowakowska
- Faculty
of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Kraków, Poland
| | - Ilpo Vattulainen
- Department
of Physics, Tampere University of Technology, PO Box 692, FI-33101 Tampere, Finland
- MEMPHYS—Center
for Biomembrane Physics, University of Southern Denmark, DK-5230 Odense, Denmark
| | - Mariusz Kepczynski
- Faculty
of Chemistry, Jagiellonian University, Ingardena 3, 30-060 Kraków, Poland
| | - Tomasz Róg
- Department
of Physics, Tampere University of Technology, PO Box 692, FI-33101 Tampere, Finland
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41
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Nandy B, Maiti PK, Bunker A. Force Biased Molecular Dynamics Simulation Study of Effect of Dendrimer Generation on Interaction with DNA. J Chem Theory Comput 2012; 9:722-9. [DOI: 10.1021/ct300678r] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Bidisha Nandy
- Center for Condensed
Matter
Theory, Department of Physics, Indian Institute of Science, Bangalore,
India
| | - Prabal K. Maiti
- Center for Condensed
Matter
Theory, Department of Physics, Indian Institute of Science, Bangalore,
India
| | - Alex Bunker
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki, Finland
- Department of Chemistry, Aalto
University, Espoo, Finland
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42
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Viitala T, Liang H, Gupta M, Zwinger T, Yliperttula M, Bunker A. Fluid dynamics modeling for synchronizing surface plasmon resonance and quartz crystal microbalance as tools for biomolecular and targeted drug delivery studies. J Colloid Interface Sci 2012; 378:251-9. [DOI: 10.1016/j.jcis.2012.04.012] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2012] [Revised: 04/04/2012] [Accepted: 04/05/2012] [Indexed: 10/28/2022]
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43
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Orłowski A, Grzybek M, Bunker A, Pasenkiewicz-Gierula M, Vattulainen I, Männistö PT, Róg T. Strong preferences of dopamine and l-dopa towards lipid head group: importance of lipid composition and implication for neurotransmitter metabolism. J Neurochem 2012; 122:681-90. [DOI: 10.1111/j.1471-4159.2012.07813.x] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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44
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Li YC, Rissanen S, Stepniewski M, Cramariuc O, Róg T, Mirza S, Xhaard H, Wytrwal M, Kepczynski M, Bunker A. Study of Interaction Between PEG Carrier and Three Relevant Drug Molecules: Piroxicam, Paclitaxel, and Hematoporphyrin. J Phys Chem B 2012; 116:7334-41. [DOI: 10.1021/jp300301z] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yen-Chin Li
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
| | - Sami Rissanen
- Department of Physics, Tampere University of Technology, Tampere, Finland
| | - Michał Stepniewski
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
| | - Oana Cramariuc
- Department of Physics, Tampere University of Technology, Tampere, Finland
| | - Tomasz Róg
- Department of Physics, Tampere University of Technology, Tampere, Finland
| | - Sabir Mirza
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
| | - Henri Xhaard
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
| | | | | | - Alex Bunker
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
- Department of Chemistry, Aalto University, Espoo, Finland
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45
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Kaszuba K, Róg T, Danne R, Canning P, Fülöp V, Juhász T, Szeltner Z, St. Pierre JF, García-Horsman A, Männistö PT, Karttunen M, Hokkanen J, Bunker A. Molecular dynamics, crystallography and mutagenesis studies on the substrate gating mechanism of prolyl oligopeptidase. Biochimie 2012; 94:1398-411. [DOI: 10.1016/j.biochi.2012.03.012] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2011] [Accepted: 03/13/2012] [Indexed: 01/10/2023]
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46
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Lehtinen J, Magarkar A, Stepniewski M, Hakola S, Bergman M, Róg T, Yliperttula M, Urtti A, Bunker A. Analysis of cause of failure of new targeting peptide in PEGylated liposome: Molecular modeling as rational design tool for nanomedicine. Eur J Pharm Sci 2012; 46:121-30. [DOI: 10.1016/j.ejps.2012.02.009] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2011] [Revised: 02/02/2012] [Accepted: 02/12/2012] [Indexed: 10/28/2022]
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47
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Magarkar A, Karakas E, Stepniewski M, Róg T, Bunker A. Molecular Dynamics Simulation of PEGylated Bilayer Interacting with Salt Ions: A Model of the Liposome Surface in the Bloodstream. J Phys Chem B 2012; 116:4212-9. [DOI: 10.1021/jp300184z] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Aniket Magarkar
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
| | - Esra Karakas
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
| | - Michał Stepniewski
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
| | - Tomasz Róg
- Department of Physics, Tampere University of Technology, Tampere, Finland
| | - Alex Bunker
- Centre for Drug Research,
Faculty
of Pharmacy, University of Helsinki, Helsinki,
Finland
- Department of Chemistry, Aalto University, Espoo, Finland
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48
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St-Pierre JF, Bunker A, Róg T, Karttunen M, Mousseau N. Molecular dynamics simulations of the bacterial ABC transporter SAV1866 in the closed form. J Phys Chem B 2012; 116:2934-42. [PMID: 22339391 DOI: 10.1021/jp209126c] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
The ATP binding cassette (ABC) transporter family of proteins contains members involved in ATP-mediated import or export of ligands at the cell membrane. For the case of exporters, the translocation mechanism involves a large-scale conformational change that involves a clothespin-like motion from an inward-facing open state, able to bind ligands and adenosine triphosphate (ATP), to an outward-facing closed state. Our work focuses on SAV1866, a bacterial member of the ABC transporter family for which the structure is known for the closed state. To evaluate the ability of this protein to undergo conformational changes at physiological temperature, we first performed conventional molecular dynamics (MD) on the cocrystallized adenosine diphosphate (ADP)-bound structure and on a nucleotide-free structure. With this assessment of SAV1866's stability, conformational changes were induced by steered molecular dynamics (SMD), in which the nucleotide binding domains (NBD) were pushed apart, simulating the ATP hydrolysis energy expenditure. We found that the transmembrane domain is not easily perturbed by large-scale motions of the NBDs.
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Affiliation(s)
- Jean-François St-Pierre
- Département de Physique and Regroupement Québécois sur les Matériaux de Pointe, Université de Montréal, C.P. 6128, succursale centre-ville, Montréal (Québec), Canada H3C 3J7
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49
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Bunker A. Poly(Ethylene Glycol) in Drug Delivery, Why Does it Work, and Can We do Better? All Atom Molecular Dynamics Simulation Provides Some Answers. ACTA ACUST UNITED AC 2012. [DOI: 10.1016/j.phpro.2012.05.004] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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50
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Orłowski A, St-Pierre JF, Magarkar A, Bunker A, Pasenkiewicz-Gierula M, Vattulainen I, Róg T. Properties of the Membrane Binding Component of Catechol-O-methyltransferase Revealed by Atomistic Molecular Dynamics Simulations. J Phys Chem B 2011; 115:13541-50. [DOI: 10.1021/jp207177p] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Adam Orłowski
- Department of Computational Biophysics and Bioinformatics, Faculty of Biotechnology, Biochemistry and Biophysics, Jagiellonian University, Gronostajowa 7, Poland
- Department of Physics, Tampere University of Technology, P.O. Box 692, FI-33101 Tampere, Finland
| | - Jean-François St-Pierre
- Departement de Physique and Regroupement Quebecois sur les Materiaux de Pointe, Universite de Montreal, C.P. 6128, Succursale Centre-ville, Montreal (Quebec), Canada
| | - Aniket Magarkar
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, P.O. Box 56, FI-00014, University of Helsinki, Finland
| | - Alex Bunker
- Centre for Drug Research, Faculty of Pharmacy, University of Helsinki, P.O. Box 56, FI-00014, University of Helsinki, Finland
- Department of Chemistry, Aalto University School of Science, P.O. Box 6100, FI-02015, AALTO, Espoo, Finland
| | - Marta Pasenkiewicz-Gierula
- Department of Computational Biophysics and Bioinformatics, Faculty of Biotechnology, Biochemistry and Biophysics, Jagiellonian University, Gronostajowa 7, Poland
| | - Ilpo Vattulainen
- Department of Physics, Tampere University of Technology, P.O. Box 692, FI-33101 Tampere, Finland
- Department of Applied Physics, Aalto University School of Science, Finland
- MEMPHYS−Center for Biomembrane Physics, University of Southern Denmark, Odense, Denmark
| | - Tomasz Róg
- Department of Physics, Tampere University of Technology, P.O. Box 692, FI-33101 Tampere, Finland
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