共 40 条
Design of a new drug delivery platform based on surface functionalization 2D covalent organic frameworks
被引:35
作者:

论文数: 引用数:
h-index:
机构:

Raissi, Heidar
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Birjand, Dept Chem, Birjand, Iran Univ Birjand, Dept Chem, Birjand, Iran

Farzad, Farzaneh
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Birjand, Dept Chem, Birjand, Iran Univ Birjand, Dept Chem, Birjand, Iran
机构:
[1] Univ Birjand, Dept Chem, Birjand, Iran
关键词:
Molecular dynamics simulations;
Covalent organic frameworks;
Doxorubicin;
Free energy surface;
HYDROGEN;
D O I:
10.1016/j.jtice.2021.05.048
中图分类号:
TQ [化学工业];
学科分类号:
0817 ;
摘要:
The adsorption mechanism of doxorubicin (DOX) on pristine covalent organic frameworks (COF) and functionalized COF (F-COF) is investigated by using molecular dynamics (MD) and Metadynamics simulations. MD simulations are performed to explore the loading of DOX into the COFs. To evaluate this process, a set of descriptors, including interaction energies, radial distribution function, and square mean displacement, the number of hydrogen bonds (HB) are calculated throughout the simulation trajectories. It is determined that HB interactions are the most important factors in stability of the investigated systems. The MD results show that the drug molecules move toward the COFs and form the stable complexes. Functionalization of COF with six and three hydroxyl groups increases its interaction energy with DOX from -16.87 to -264.95 and -139.87 kJ/ mol, respectively. In this study, the free energy surface (FES) is also calculated by well-tempered metadynamics simulation technique. The PES landscapes confirm that the global minimum could be typically relevant to formation of the HB. The free energy values for the COF/DOX complexes in pristine and functionalization of COFs at their global minima are reached about -229.7, -260.46 (for six OH groups), and -243.37 (for three OH groups) kJ/mol, respectively. In addition, at the acidic condition, protonation of DOX causes that the interactions between DOXs and the COFs become weaker and drug molecules could release from the nanocarrier cavities. (c) 2021 Taiwan Institute of Chemical Engineers. Published by Elsevier B.V. All rights reserved.
引用
收藏
页码:15 / 22
页数:8
相关论文
共 40 条
[1]
Gromacs: High performance molecular simulations through multi-level parallelism from laptops to supercomputers
[J].
Abraham, Mark James
;
Murtola, Teemu
;
Schulz, Roland
;
Páll, Szilárd
;
Smith, Jeremy C.
;
Hess, Berk
;
Lindah, Erik
.
SoftwareX,
2015, 1-2
:19-25

Abraham, Mark James
论文数: 0 引用数: 0
h-index: 0
机构:
Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna

Murtola, Teemu
论文数: 0 引用数: 0
h-index: 0
机构:
Center for Biomembrane Research, Department of Biochemistry and Biophysics, Stockholm University, Stockholm Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna

Schulz, Roland
论文数: 0 引用数: 0
h-index: 0
机构:
Oak Ridge National Laboratory, 1 Bethel Valley Road, Oak Ridge, 37831, TN
Department of Biochemistry and Cellular and Molecular Biology, University of Tennessee, M407 Walters Life Sciences, 1414 Cumberland Avenue, Knoxville, 37996, TN Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna

Páll, Szilárd
论文数: 0 引用数: 0
h-index: 0
机构:
Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna

Smith, Jeremy C.
论文数: 0 引用数: 0
h-index: 0
机构:
Oak Ridge National Laboratory, 1 Bethel Valley Road, Oak Ridge, 37831, TN
Department of Biochemistry and Cellular and Molecular Biology, University of Tennessee, M407 Walters Life Sciences, 1414 Cumberland Avenue, Knoxville, 37996, TN Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna

Hess, Berk
论文数: 0 引用数: 0
h-index: 0
机构:
Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna

Lindah, Erik
论文数: 0 引用数: 0
h-index: 0
机构:
Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna
Center for Biomembrane Research, Department of Biochemistry and Biophysics, Stockholm University, Stockholm Theoretical Biophysics, Science for Life Laboratory, KTH Royal Institute of Technology, Solna
[2]
An imine based COF as a smart carrier for targeted drug delivery: From synthesis to computational studies
[J].
Akyuz, Lalehan
.
MICROPOROUS AND MESOPOROUS MATERIALS,
2020, 294

论文数: 引用数:
h-index:
机构:
[3]
Mitochondrial DNA is a direct target of anti-cancer anthracycline drugs
[J].
Ashley, Neil
;
Poulton, Joanna
.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS,
2009, 378 (03)
:450-455

Ashley, Neil
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Oxford, John Radcliffe Hosp, Nuffield Dept Obstet & Gynaecol, Womens Ctr, Oxford OX3 9DU, England Univ Oxford, John Radcliffe Hosp, Nuffield Dept Obstet & Gynaecol, Womens Ctr, Oxford OX3 9DU, England

Poulton, Joanna
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Oxford, John Radcliffe Hosp, Nuffield Dept Obstet & Gynaecol, Womens Ctr, Oxford OX3 9DU, England Univ Oxford, John Radcliffe Hosp, Nuffield Dept Obstet & Gynaecol, Womens Ctr, Oxford OX3 9DU, England
[4]
Delamination of Layered Covalent Organic Frameworks
[J].
Berlanga, Isadora
;
Luisa Ruiz-Gonzalez, Maria
;
Maria Gonzalez-Calbet, Jose
;
Fierro, Jose Luis G.
;
Mas-Balleste, Ruben
;
Zamora, Felix
.
SMALL,
2011, 7 (09)
:1207-1211

Berlanga, Isadora
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain

Luisa Ruiz-Gonzalez, Maria
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain
Univ Complutense Madrid, Dept Quim Inorgan, E-28040 Madrid, Spain Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain

Maria Gonzalez-Calbet, Jose
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain
Univ Complutense Madrid, Dept Quim Inorgan, E-28040 Madrid, Spain Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain

Fierro, Jose Luis G.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain
CSIC, Inst Catalisis & Petroleoquim, E-28049 Madrid, Spain Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain

Mas-Balleste, Ruben
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain

Zamora, Felix
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain Univ Autonoma Madrid, Dept Quim Inorgan, E-28049 Madrid, Spain
[5]
PLUMED: A portable plugin for free-energy calculations with molecular dynamics
[J].
Bonomi, Massimiliano
;
Branduardi, Davide
;
Bussi, Giovanni
;
Camilloni, Carlo
;
Provasi, Davide
;
Raiteri, Paolo
;
Donadio, Davide
;
Marinelli, Fabrizio
;
Pietrucci, Fabio
;
Broglia, Ricardo A.
;
Parrinello, Michele
.
COMPUTER PHYSICS COMMUNICATIONS,
2009, 180 (10)
:1961-1972

Bonomi, Massimiliano
论文数: 0 引用数: 0
h-index: 0
机构:
Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Branduardi, Davide
论文数: 0 引用数: 0
h-index: 0
机构:
Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Bussi, Giovanni
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Modena & Reggio Emilia, I-41100 Modena, Italy
INFM CNR S3, I-41100 Modena, Italy Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Camilloni, Carlo
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Milan, Dept Phys, I-20133 Milan, Italy
Ist Nazl Fis Nucl, Sez Milano, I-20133 Milan, Italy Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Provasi, Davide
论文数: 0 引用数: 0
h-index: 0
机构:
Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Raiteri, Paolo
论文数: 0 引用数: 0
h-index: 0
机构:
NRI, Perth, WA 6845, Australia
Dept Appl Chem, Perth, WA 6845, Australia Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Donadio, Davide
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif Davis, Dept Chem, Davis, CA 95616 USA Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Marinelli, Fabrizio
论文数: 0 引用数: 0
h-index: 0
机构:
SISSA, Int Sch Adv Studies, I-34014 Trieste, Italy Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Pietrucci, Fabio
论文数: 0 引用数: 0
h-index: 0
机构:
SISSA, Int Sch Adv Studies, I-34014 Trieste, Italy Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Broglia, Ricardo A.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Milan, Dept Phys, I-20133 Milan, Italy
Univ Copenhagen, Niels Bohr Inst, DK-2100 Copenhagen, Denmark Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland

Parrinello, Michele
论文数: 0 引用数: 0
h-index: 0
机构:
Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland Swiss Fed Inst Technol, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland
[6]
CHARMM: The Biomolecular Simulation Program
[J].
Brooks, B. R.
;
Brooks, C. L., III
;
Mackerell, A. D., Jr.
;
Nilsson, L.
;
Petrella, R. J.
;
Roux, B.
;
Won, Y.
;
Archontis, G.
;
Bartels, C.
;
Boresch, S.
;
Caflisch, A.
;
Caves, L.
;
Cui, Q.
;
Dinner, A. R.
;
Feig, M.
;
Fischer, S.
;
Gao, J.
;
Hodoscek, M.
;
Im, W.
;
Kuczera, K.
;
Lazaridis, T.
;
Ma, J.
;
Ovchinnikov, V.
;
Paci, E.
;
Pastor, R. W.
;
Post, C. B.
;
Pu, J. Z.
;
Schaefer, M.
;
Tidor, B.
;
Venable, R. M.
;
Woodcock, H. L.
;
Wu, X.
;
Yang, W.
;
York, D. M.
;
Karplus, M.
.
JOURNAL OF COMPUTATIONAL CHEMISTRY,
2009, 30 (10)
:1545-1614

Brooks, B. R.
论文数: 0 引用数: 0
h-index: 0
机构:
NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Brooks, C. L., III
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Michigan, Dept Chem, Ann Arbor, MI 48109 USA
Univ Michigan, Dept Biophys, Ann Arbor, MI 48109 USA NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Mackerell, A. D., Jr.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Maryland, Sch Pharm, Dept Pharmaceut Sci, Baltimore, MD 21201 USA NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Nilsson, L.
论文数: 0 引用数: 0
h-index: 0
机构:
Karolinska Inst, Dept Biosci & Nutr, SE-14157 Huddinge, Sweden NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Petrella, R. J.
论文数: 0 引用数: 0
h-index: 0
机构:
Harvard Univ, Dept Chem & Chem Biol, Cambridge, MA 02138 USA
Harvard Univ, Sch Med, Dept Med, Boston, MA 02115 USA NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

论文数: 引用数:
h-index:
机构:

Won, Y.
论文数: 0 引用数: 0
h-index: 0
机构:
Hanyang Univ, Dept Chem, Seoul 133792, South Korea NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Archontis, G.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Bartels, C.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Boresch, S.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Caflisch, A.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Caves, L.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Cui, Q.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Dinner, A. R.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Feig, M.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Fischer, S.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Gao, J.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Hodoscek, M.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Im, W.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Kuczera, K.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Lazaridis, T.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Ma, J.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Ovchinnikov, V.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Paci, E.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Pastor, R. W.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Post, C. B.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Pu, J. Z.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Schaefer, M.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Tidor, B.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Venable, R. M.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Woodcock, H. L.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Wu, X.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Yang, W.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

York, D. M.
论文数: 0 引用数: 0
h-index: 0
机构: NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA

Karplus, M.
论文数: 0 引用数: 0
h-index: 0
机构:
Harvard Univ, Dept Chem & Chem Biol, Cambridge, MA 02138 USA
Univ Strasbourg, ISIS, Lab Chim Biophys, F-67000 Strasbourg, France NHLBI, Lab Computat Biol, NIH, Bethesda, MD 20892 USA
[7]
Using metadynamics to explore complex free-energy landscapes
[J].
Bussi, Giovanni
;
Laio, Alessandro
.
NATURE REVIEWS PHYSICS,
2020, 2 (04)
:200-212

Bussi, Giovanni
论文数: 0 引用数: 0
h-index: 0
机构:
SISSA, Trieste, Italy SISSA, Trieste, Italy

Laio, Alessandro
论文数: 0 引用数: 0
h-index: 0
机构:
SISSA, Trieste, Italy
Abdus Salaam Int Ctr Theoret Phys, Trieste, Italy SISSA, Trieste, Italy
[8]
Well-Tempered Metadynamics Converges Asymptotically
[J].
Dama, James F.
;
Parrinello, Michele
;
Voth, Gregory A.
.
PHYSICAL REVIEW LETTERS,
2014, 112 (24)

Dama, James F.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Chicago, Dept Chem, James Franck Inst, Inst Biophys Dynam, Chicago, IL 60637 USA
Univ Chicago, Computat Inst, Chicago, IL 60637 USA Univ Chicago, Dept Chem, James Franck Inst, Inst Biophys Dynam, Chicago, IL 60637 USA

Parrinello, Michele
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Italiana, ETH Zurich, Dept Chem & Appl Biosci, CH-6900 Lugano, Switzerland
Univ Italiana, Fac Informat, Ist Sci Computaz, CH-6900 Lugano, Switzerland Univ Chicago, Dept Chem, James Franck Inst, Inst Biophys Dynam, Chicago, IL 60637 USA

Voth, Gregory A.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Chicago, Dept Chem, James Franck Inst, Inst Biophys Dynam, Chicago, IL 60637 USA
Univ Chicago, Computat Inst, Chicago, IL 60637 USA Univ Chicago, Dept Chem, James Franck Inst, Inst Biophys Dynam, Chicago, IL 60637 USA
[9]
The atom, the molecule, and the covalent organic framework
[J].
Diercks, Christian S.
;
Yaghi, Omar M.
.
SCIENCE,
2017, 355 (6328)

Diercks, Christian S.
论文数: 0 引用数: 0
h-index: 0
机构: Univ Calif Berkeley, Dept Chem, Berkeley, CA 94720 USA

Yaghi, Omar M.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif Berkeley, Dept Chem, Berkeley, CA 94720 USA Univ Calif Berkeley, Dept Chem, Berkeley, CA 94720 USA
[10]
THE NOSE-HOOVER THERMOSTAT
[J].
EVANS, DJ
;
HOLIAN, BL
.
JOURNAL OF CHEMICAL PHYSICS,
1985, 83 (08)
:4069-4074

EVANS, DJ
论文数: 0 引用数: 0
h-index: 0

HOLIAN, BL
论文数: 0 引用数: 0
h-index: 0