scholarly journals Molecular dynamic simulation of CO2 absorption into mixed aqueous solutions MDEA/PZ

2017 ◽  
Vol 19 ◽  
pp. 1 ◽  
Author(s):  
Noorlisa Harun ◽  
Emyra Ezzaty Masiren

<p>The mixture of amine absorption process is an approach for mitigation of carbon dioxide (CO<sub>2</sub>) from flue gas that produces from power plant. Several experimental and simulation studies have been undertaken to understand this process but the mechanism of CO<sub>2</sub> absorption into the aqueous blended amines such as MDEA/PZ is not well understood and available knowledge within the open literature is limited. The aim of this study is to investigate the intermolecular interaction of the blended MDEA/PZ using Molecular Dynamics (MD) simulation. MD simulation was run under condition 313 K and 1 atm. The thermodynamic ensemble used were 200 ps for NVE and 1 ns for NVT. The periodic boundary is used to visualize the interaction of molecules of the whole system. The simulation method also involved calculation of force field and time integration algorithm.The results were interpreted in terms of Radial Distribution Function (RDF) analysis. It was observed that the hydroxyl group (–OH) of MDEA is more attracted to water molecule compared to amino group (–NH) of MDEA. The intermolecular interaction probability of –OH and –NH group of MDEA with CO<sub>2</sub> in blended MDEA/PZ is higher than using pure MDEA. This finding shows that PZ molecule act as an activator to promote the intermolecular interaction between MDEA and CO<sub>2</sub>.Thus, blend of MDEA with PZ is expecting to increase the absorption rate of CO2 and reduce the heat regeneration requirement.</p><p>Chemical Engineering Research Bulletin 19(2017) 1-11</p>

2020 ◽  
Vol 146 (9) ◽  
pp. 04020104
Author(s):  
Giuseppe Abbiati ◽  
Patrick Covi ◽  
Nicola Tondini ◽  
Oreste S. Bursi ◽  
Božidar Stojadinović

2019 ◽  
Vol 47 (14) ◽  
pp. 7676-7689 ◽  
Author(s):  
William C Solomon ◽  
Wazo Myint ◽  
Shurong Hou ◽  
Tapan Kanai ◽  
Rashmi Tripathi ◽  
...  

Abstract The potent antiretroviral protein APOBEC3G (A3G) specifically targets and deaminates deoxycytidine nucleotides, generating deoxyuridine, in single stranded DNA (ssDNA) intermediates produced during HIV replication. A non-catalytic domain in A3G binds strongly to RNA, an interaction crucial for recruitment of A3G to the virion; yet, A3G displays no deamination activity for cytidines in viral RNA. Here, we report NMR and molecular dynamics (MD) simulation analysis for interactions between A3Gctd and multiple substrate or non-substrate DNA and RNA, in combination with deamination assays. NMR ssDNA-binding experiments revealed that the interaction with residues in helix1 and loop1 (T201-L220) distinguishes the binding mode of substrate ssDNA from non-substrate. Using 2′-deoxy-2′-fluorine substituted cytidines, we show that a 2′-endo sugar conformation of the target deoxycytidine is favored for substrate binding and deamination. Trajectories of the MD simulation indicate that a ribose 2′-hydroxyl group destabilizes the π-π stacking of the target cytosine and H257, resulting in dislocation of the target cytosine base from the catalytic position. Interestingly, APOBEC3A, which can deaminate ribocytidines, retains the ribocytidine in the catalytic position throughout the MD simulation. Our results indicate that A3Gctd catalytic selectivity against RNA is dictated by both the sugar conformation and 2′-hydroxyl group.


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