Relevant bibliographies by topics / Study of protein-ligand interactions

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Academic literature on the topic 'Study of protein-ligand interactions'

Author: Grafiati
Published: 4 June 2021
Last updated: 8 February 2022

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Journal articles on the topic "Study of protein-ligand interactions"

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Chappuis, Quentin, Jonas Milani, Basile Vuichoud, et al. "Hyperpolarized Water to Study Protein–Ligand Interactions." Journal of Physical Chemistry Letters 6, no. 9 (2015): 1674–78. http://dx.doi.org/10.1021/acs.jpclett.5b00403.

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Banner, D. "Using thrombin to study protein–ligand interactions." Acta Crystallographica Section A Foundations of Crystallography 60, a1 (2004): s27. http://dx.doi.org/10.1107/s0108767304099477.

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Biswas, Priyanka. "Modern Biophysical Approaches to Study Protein–Ligand Interactions." Biophysical Reviews and Letters 13, no. 04 (2018): 133–55. http://dx.doi.org/10.1142/s1793048018300013.

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Protein–ligand interactions act as a pivot to the understanding of most of the biological interactions. The study of interactions between proteins and cellular molecules has led to the establishment and identification of various important pathways that control biological systems. Investigators working in different fields of biological sciences have an intrinsic interest in this field and complement their findings by the application of different biophysical approaches and tools to quantify protein–ligand interactions that include protein–small molecules, protein–DNA, protein–RNA, protein–protei
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Singh, Omkar, Kunal Sawariya, and Polamarasetty Aparoy. "Graphlet signature-based scoring method to estimate protein–ligand binding affinity." Royal Society Open Science 1, no. 4 (2014): 140306. http://dx.doi.org/10.1098/rsos.140306.

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Over the years, various computational methodologies have been developed to understand and quantify receptor–ligand interactions. Protein–ligand interactions can also be explained in the form of a network and its properties. The ligand binding at the protein-active site is stabilized by formation of new interactions like hydrogen bond, hydrophobic and ionic. These non-covalent interactions when considered as links cause non-isomorphic sub-graphs in the residue interaction network. This study aims to investigate the relationship between these induced sub-graphs and ligand activity. Graphlet sign
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Kumar, Prashant, and Paulina Maria Dominiak. "Combining Molecular Dynamic Information and an Aspherical-Atom Data Bank in the Evaluation of the Electrostatic Interaction Energy in Multimeric Protein-Ligand Complex: A Case Study for HIV-1 Protease." Molecules 26, no. 13 (2021): 3872. http://dx.doi.org/10.3390/molecules26133872.

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Computational analysis of protein–ligand interactions is of crucial importance for drug discovery. Assessment of ligand binding energy allows us to have a glimpse of the potential of a small organic molecule to be a ligand to the binding site of a protein target. Available scoring functions, such as in docking programs, all rely on equations that sum each type of protein–ligand interactions in order to predict the binding affinity. Most of the scoring functions consider electrostatic interactions involving the protein and the ligand. Electrostatic interactions constitute one of the most import
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Fu, Yi, Ji Zhao, and Zhiguo Chen. "Insights into the Molecular Mechanisms of Protein-Ligand Interactions by Molecular Docking and Molecular Dynamics Simulation: A Case of Oligopeptide Binding Protein." Computational and Mathematical Methods in Medicine 2018 (December 4, 2018): 1–12. http://dx.doi.org/10.1155/2018/3502514.

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Protein-ligand interactions are a necessary prerequisite for signal transduction, immunoreaction, and gene regulation. Protein-ligand interaction studies are important for understanding the mechanisms of biological regulation, and they provide a theoretical basis for the design and discovery of new drug targets. In this study, we analyzed the molecular interactions of protein-ligand which was docked by AutoDock 4.2 software. In AutoDock 4.2 software, we used a new search algorithm, hybrid algorithm of random drift particle swarm optimization and local search (LRDPSO), and the classical Lamarck
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Apaydin, M. S., C. E. Guestrin, C. Varma, D. L. Brutlag, and J. C. Latombe. "Stochastic roadmap simulation for the study of ligand-protein interactions." Bioinformatics 18, Suppl 2 (2002): S18—S26. http://dx.doi.org/10.1093/bioinformatics/18.suppl_2.s18.

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Wati, Widia, Gunawan Pamudji Widodo, and Rina Herowati. "Prediction of Pharmacokinetics Parameter and Molecular Docking Study of Antidiabetic Compounds from Syzygium polyanthum and Syzygium cumini." Jurnal Kimia Sains dan Aplikasi 23, no. 6 (2020): 189–95. http://dx.doi.org/10.14710/jksa.23.6.189-195.

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Syzygium polyanthum leaf extract and Syzygium cumini herbs extract have been reported to have antidiabetic activity. This study aimed to predict the molecular target of chemical constituents of S. polyanthum and S. cumini as well as study their interactions with various macromolecular targets of an antidiabetic agent. Molecular docking of all ligands was studied using the Autodock Vina program in PyRx, and the results are presented as binding affinity values (kcal/mol) of ligand against the protein. PyMOL is used to visualize the 3D molecular of docked conformation and ligand-protein interacti
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Barone, G., F. Catanzano, P. Del Vecchio, C. Giancola, and G. Graziano. "Differential scanning calorimetry as a tool to study protein-ligand interactions." Pure and Applied Chemistry 67, no. 11 (1995): 1867–72. http://dx.doi.org/10.1351/pac199567111867.

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Stoneman, Michael R., Naomi Raicu, Gabriel Biener, and Valerică Raicu. "Fluorescence-based Methods for the Study of Protein-Protein Interactions Modulated by Ligand Binding." Current Pharmaceutical Design 26, no. 44 (2020): 5668–83. http://dx.doi.org/10.2174/1381612826666201116120934.

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Background: The growing evidence that G protein-coupled receptors (GPCRs) not only form oligomers but that the oligomers also may modulate the receptor function provides a promising avenue in the area of drug design. Highly selective drugs targeting distinct oligomeric sub-states offer the potential to increase efficacy while reducing side effects. In this regard, determining the various oligomeric configurations and geometric sub-states of a membrane receptor is of utmost importance. Methods: In this report, we have reviewed two techniques that have proven to be valuable in monitoring the qua
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Dissertations / Theses on the topic "Study of protein-ligand interactions"

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Abboud, Martine. "Using NMR to study protein-ligand interactions." Thesis, University of Oxford, 2016. https://ora.ox.ac.uk/objects/uuid:a4aa5995-625a-4814-8c91-e0114c1e2004.

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The work described in this thesis focused on the use of nuclear magnetic resonance spectroscopy (NMR) to study two classes of metallo enzymes - the Fe(II)- and 2oxoglutarate (2OG)-dependent dioxygenases and the metallo β-lactamases (MBLs). These enzymes are involved in clinically important biological processes, i.e. the hypoxic response and antimicrobial resistance, respectively. Both protein systems are interesting from an NMR perspective because they have dynamic regions involved in catalysis and ligand interactions. The work included mechanistic studies, protein-ligand interaction studies,
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Pearson, Joshua Thomas. "A biophysical study of protein dynamics and protein-ligand interactions /." Thesis, Connect to this title online; UW restricted, 2006. http://hdl.handle.net/1773/8173.

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Choy, Desmond Chun Yu. "Haemoproteins and the study of protein-ligand interactions." Thesis, University of Cambridge, 2015. https://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.709179.

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Martínez-Jiménez, Francisco 1988. "Structural study of the therapeutic potential of protein-ligand interactions." Doctoral thesis, Universitat Pompeu Fabra, 2016. http://hdl.handle.net/10803/565402.

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Most of the cellular functions are driven by small-molecules that selectively bind to their protein targets. Is such their importance, that the pharmacological intervention of proteins by small molecule drugs is frequently used to treat multiple conditions. Herein I present a thesis that leverages a threedimensional study of small molecule protein interactions to improve their therapeutic relevance. More specifically, it introduces nAnnolyze, a method for predicting structurally detailed protein-ligand interactions at proteome scale. The method exemplified its applicability by predictin
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Morris, Daniel L. "NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY IN THE STUDY OF PROTEIN-LIGAND INTERACTIONS." University of Akron / OhioLINK, 2018. http://rave.ohiolink.edu/etdc/view?acc_num=akron1524681449524557.

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Green, Roderic charles Edward. "A computational study of protein-protein and protein-ligand interactions : A focus on HNF4a and ATP synthase." Thesis, University of Surrey, 2010. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.533173.

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Brown, Marc B. "The use of long wavelength fluorescence in the study of ligand-protein interactions." Thesis, Loughborough University, 1993. https://dspace.lboro.ac.uk/2134/12677.

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The binding of a drug or other ligand to plasma proteins can effect their absorption, metabolism and excretion which can lead to a change in its toxicity and therapeutic action. Fluorescence is a technique that has been used to study such interactions and has the advantages of extreme sensitivity and specificity. Previously fluorescence has been monitored in the UV /vis range of the spectrum. However, a new development is long wavelength fluorescence (600-1000nm), which has the added benefits of a lower background, decreased scattering, decreased photodecomposition and the availability of inex
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Williamson, Philip Thomas Franklin. "The application of solid state nuclear magnetic resonance to the study of ligand protein interactions." Thesis, University of Oxford, 1999. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.302109.

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Lampinen, Milla. "AMPA receptor ligand-binding domain : site-directed mutagenesis study of ligand-receptor interactions." Helsinki : University of Helsinki, 2003. http://ethesis.helsinki.fi/julkaisut/mat/bioti/vk/lampinen/.

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Zenonos, Zenon. "Applying recombinant protein technology to study Plasmodium falciparum erythrocyte receptor-ligand interactions and their potential as therapeutic targets." Thesis, University of Cambridge, 2014. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.648790.

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Books on the topic "Study of protein-ligand interactions"

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Gohlke, Holger, ed. Protein-Ligand Interactions. Wiley-VCH Verlag GmbH & Co. KGaA, 2012. http://dx.doi.org/10.1002/9783527645947.

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Williams, Mark A., and Tina Daviter, eds. Protein-Ligand Interactions. Humana Press, 2013. http://dx.doi.org/10.1007/978-1-62703-398-5.

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Nienhaus, G. Ulrich. Protein-Ligand Interactions. Humana Press, 2005. http://dx.doi.org/10.1385/1592599125.

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Daviter, Tina, Christopher M. Johnson, Stephen H. McLaughlin, and Mark A. Williams, eds. Protein-Ligand Interactions. Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1197-5.

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Protein-ligand interactions: Methods and applications. 2nd ed. Humana Press, 2013.

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Press, Humana, ed. Protein-ligand interactions: Methods and applications. Humana Press, 2010.

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Ballante, Flavio, ed. Protein-Ligand Interactions and Drug Design. Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1209-5.

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Ismail, Matthew Arif. DNA-ligand interactions: A biophysical study of 9-hydroxyellipticine, Hoechst 33258 and a meso-substituted porphyrin derivative binding to DNA. typescript, 1998.

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9

Wang, Jianpeng. Study of the Peptide-Peptide and Peptide-Protein Interactions and Their Applications in Cell Imaging and Nanoparticle Surface Modification. Springer Berlin Heidelberg, 2016. http://dx.doi.org/10.1007/978-3-662-53399-4.

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Martin, R. P. Synthesis of a thiosugar analogue of an N - linked oligosaccharide fragment: A tool for the study of carbohydrate -protein interactions. UMIST, 1995.

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Book chapters on the topic "Study of protein-ligand interactions"

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Pompey, Shanica N., Peter Michaely, and Katherine Luby-Phelps. "Quantitative Fluorescence Co-localization to Study Protein–Receptor Complexes." In Protein-Ligand Interactions. Humana Press, 2013. http://dx.doi.org/10.1007/978-1-62703-398-5_16.

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Daviter, Tina, Nikola Chmel, and Alison Rodger. "Circular and Linear Dichroism Spectroscopy for the Study of Protein–Ligand Interactions." In Protein-Ligand Interactions. Humana Press, 2013. http://dx.doi.org/10.1007/978-1-62703-398-5_8.

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Birchenough, Holly L., and Thomas A. Jowitt. "Quartz Crystal Microbalance with Monitoring (QCM-D): Preparing Lipid Layers for the Study of Complex Protein–Ligand Interactions." In Protein-Ligand Interactions. Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1197-5_7.

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Sigler, P. B., A. Joachimiak, R. W. Schevitz, et al. "trp Repressor, A Crystallographic Study of Allostery in Genetic Regulation." In DNA—Ligand Interactions. Springer US, 1987. http://dx.doi.org/10.1007/978-1-4684-5383-6_12.

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Geerlings, P., R. Vivas-Reyes, F. Proft, M. Biesemans, and R. Willem. "DFT Based Reactivity Descriptors and Their Application to the Study of Organotin Compounds." In Metal-Ligand Interactions. Springer Netherlands, 2003. http://dx.doi.org/10.1007/978-94-010-0191-5_21.

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Belcastro, M., S. Chiodo, O. Kondakova, et al. "On the Use of Density Functional Theory in the Study of Metal-Ligand Interactions. Some Studied Cases." In Metal-Ligand Interactions. Springer Netherlands, 2003. http://dx.doi.org/10.1007/978-94-010-0191-5_1.

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Alagona, Giuliano, Caterina Ghio, and Peter A. Kollman. "Computational Approaches to the Study of Protein — Ligand Interactions." In Macromolecular Biorecognition. Humana Press, 1987. http://dx.doi.org/10.1007/978-1-4612-4600-8_2.

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Boelens, R., R. M. Scheek, R. M. J. N. Lamerichs, J. de Vlieg, J. H. van Boom, and R. Kaptein. "A Two-Dimensional NMR Study of the Complex of lac Repressor Headpiece with a 14 Base Pair lac Operator Fragment." In DNA—Ligand Interactions. Springer US, 1987. http://dx.doi.org/10.1007/978-1-4684-5383-6_14.

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Schuck, Peter. "Sedimentation Velocity in the Study of Reversible Multiprotein Complexes." In Protein Interactions. Springer US, 2007. http://dx.doi.org/10.1007/978-0-387-35966-3_16.

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Parekh, Parag, Jennifer Martin, Yan Chen, Dalia Colon, Hui Wang, and Weihong Tan. "Using Aptamers to Study Protein–Protein Interactions." In Protein – Protein Interaction. Springer Berlin Heidelberg, 2008. http://dx.doi.org/10.1007/10_2008_104.

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Conference papers on the topic "Study of protein-ligand interactions"

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Rossi, Barbara, Marco Giarola, Gino Mariotto, et al. "Raman Scattering Study of Ligand-Binding Interactions in SOUL Protein Single Crystals." In XXII INTERNATIONAL CONFERENCE ON RAMAN SPECTROSCOPY. AIP, 2010. http://dx.doi.org/10.1063/1.3482725.

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Saitakis, M., A. Dellaporta, and E. Gizeli. "A surface acoustic wave sensor for the study of membrane-protein/ligand interactions using whole cells." In 2008 IEEE International Frequency Control Symposium. IEEE, 2008. http://dx.doi.org/10.1109/freq.2008.4623019.

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Smith, Douglas E., Gregory J. Gemmen, Rachel Millin, John P. Rickgauer, Allan L. Schweitzer, and Derek N. Fuller. "Using optical tweezers to study protein-DNA interactions." In Optics & Photonics 2005, edited by Kishan Dholakia and Gabriel C. Spalding. SPIE, 2005. http://dx.doi.org/10.1117/12.618038.

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Brown, J. B., Satoshi Niijima, Akira Shiraishi, Masahiko Nakatsui, and Yasushi Okuno. "Chemogenomic approach to comprehensive predictions of ligand-target interactions: A comparative study." In 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW). IEEE, 2012. http://dx.doi.org/10.1109/bibmw.2012.6470295.

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Royer, Catherine A., Veronique Le Tilly, Kathleen Martin, and Robert Burns. "Fluorescence approaches to the study of protein-DNA interactions." In OE/LASE '92, edited by Joseph R. Lakowicz. SPIE, 1992. http://dx.doi.org/10.1117/12.58207.

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Clowsley, Alex, William T. Kaufhold, Tobias Lutz, Anna Meletiou, Lorenzo Di Michele, and Christian Soeller. "New DNA-based localisation microscopy approaches to study protein-protein interactions and nanoscale protein placement in situ." In Biophotonics and Biomedical Microscopy, edited by Sumeet Mahajan and Amanda J. Wright. SPIE, 2020. http://dx.doi.org/10.1117/12.2584755.

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Van der Maelen, Juan F., and Santiago García-Granda. "A comparative topological study of different metal-metal and metal-ligand interactions in polynuclear organometallic clusters." In PROCEEDINGS OF THE INTERNATIONAL CONFERENCE OF COMPUTATIONAL METHODS IN SCIENCES AND ENGINEERING 2010 (ICCMSE-2010). AIP Publishing LLC, 2015. http://dx.doi.org/10.1063/1.4906743.

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Rahman, Khondaker M., Jonathan Palmer, Samantha Essex, et al. "Abstract 1382: Use of polarized light spectroscopy (CD) to study STAT3 folding and STAT3:ligand interactions." In Proceedings: AACR 102nd Annual Meeting 2011‐‐ Apr 2‐6, 2011; Orlando, FL. American Association for Cancer Research, 2011. http://dx.doi.org/10.1158/1538-7445.am2011-1382.

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Zheng, Zhuoyuan, Akash Singh, and Yumeng Li. "Molecular Dynamic Simulation Study on Soy Protein As Drug Delivery Vehicle." In ASME 2020 International Mechanical Engineering Congress and Exposition. American Society of Mechanical Engineers, 2020. http://dx.doi.org/10.1115/imece2020-23590.

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Abstract Protein-based drug carriers are promising candidates for efficient drug delivery among the available potential colloidal carrier systems, due to their low cytotoxicity, abundance, renewability, diverse functional groups and interactions, and high drug loading capacity, etc. In this study, molecular dynamics (MD) simulations are performed to study the mechanisms of 11S molecule of soy protein as drug delivery vehicle to attach allyl isothiocyanate (AITC) and doxorubicin (DOX) drugs. The intermolecular interactions between protein and drugs are investigated; and the loading capacities o
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Devi, Nirmala, Anwar Sadat, Shaumik Ray, Kausik Chakraborty, Koyeli Mapa, and Bala Pesala. "Study of Protein Water Interactions in GroEL Molecular Chaperonins using Terahertz Spectroscopy." In 2019 44th International Conference on Infrared, Millimeter, and Terahertz Waves (IRMMW-THz). IEEE, 2019. http://dx.doi.org/10.1109/irmmw-thz.2019.8873727.

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Reports on the topic "Study of protein-ligand interactions"

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Ma, Buyong, and Ruth Nussinov. Computational Study of Cytolytic Peptides: Monomeric-Oligomeric Structures and Ligand Interactions. Defense Technical Information Center, 2005. http://dx.doi.org/10.21236/ada444931.

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Marquart, Grant. Biomimetic Model Membranes to Study Protein-membrane Interactions and their Role in Alzheimer?s Disease. Portland State University Library, 2015. http://dx.doi.org/10.15760/honors.154.

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Zhou, C., and A. Zemla. Computational biology for target discovery and characterization: a feasibility study in protein-protein interaction detection. Office of Scientific and Technical Information (OSTI), 2009. http://dx.doi.org/10.2172/948981.

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