Insight into the structural requirements of aminopyrimidine derivatives for good potency against both purified enzyme and whole cells of M. tuberculosis: combination of HQSAR, CoMSIA, and MD simulation studies

2015 ◽  
Vol 34 (5) ◽  
pp. 1079-1091 ◽  
Author(s):  
Auradee Punkvang ◽  
Supa Hannongbua ◽  
Patchreenart Saparpakorn ◽  
Pornpan Pungpo
2018 ◽  
Vol 269 ◽  
pp. 511-520 ◽  
Author(s):  
Nasser Abdulatif Al-Shabib ◽  
Javed Masood Khan ◽  
Ajamaluddin Malik ◽  
Mohammad A. Alsenaidy ◽  
Md Tabish Rehman ◽  
...  

1994 ◽  
Vol 116 (2) ◽  
pp. 225-231 ◽  
Author(s):  
D. E. Kim ◽  
N. P. Suh

Molecular dynamics (MD) simulation studies of two-dimensional atomic-scale frictional force are presented. The motivation for this work is to gain insight into the effects of interatomic forces on the frictional phenomena. Instantaneous friction coefficients are calculated for an atom scanning across the surface of a two-dimensional Lennard-Jones type crystal in both static and dynamic modes. It is found that net frictional force can arise even in the absence of adhesive interaction between the scanning atom and the substrate. Furthermore, in the case of nondestructive sliding the frictional interaction leads to increase in the substrate temperature which can be calculated.


2021 ◽  
Vol 7 (1) ◽  
Author(s):  
Sensen Zhang ◽  
Baolei Yuan ◽  
Jordy Homing Lam ◽  
Jun Zhou ◽  
Xuan Zhou ◽  
...  

AbstractPannexin1 (PANX1) is a large-pore ATP efflux channel with a broad distribution, which allows the exchange of molecules and ions smaller than 1 kDa between the cytoplasm and extracellular space. In this study, we show that in human macrophages PANX1 expression is upregulated by diverse stimuli that promote pyroptosis, which is reminiscent of the previously reported lipopolysaccharide-induced upregulation of PANX1 during inflammasome activation. To further elucidate the function of PANX1, we propose the full-length human Pannexin1 (hPANX1) model through cryo-electron microscopy (cryo-EM) and molecular dynamics (MD) simulation studies, establishing hPANX1 as a homo-heptamer and revealing that both the N-termini and C-termini protrude deeply into the channel pore funnel. MD simulations also elucidate key energetic features governing the channel that lay a foundation to understand the channel gating mechanism. Structural analyses, functional characterizations, and computational studies support the current hPANX1-MD model, suggesting the potential role of hPANX1 in pyroptosis during immune responses.


2019 ◽  
Vol 78 ◽  
pp. 398-413 ◽  
Author(s):  
Shahzaib Ahamad ◽  
Asimul Islam ◽  
Faizan Ahmad ◽  
Neeraj Dwivedi ◽  
Md. Imtaiyaz Hassan

2020 ◽  
Vol 44 (41) ◽  
pp. 17912-17923
Author(s):  
Kandhan Palanisamy ◽  
Muthuramalingam Prakash ◽  
Varatharaj Rajapandian

The hydrated clusters of protonated imidazole (ImH+) can induce protein denaturation through various kinds of monovalent interactions such as cation···π (stacking), N–H⋯π (T-shaped) and water-mediated O–H⋯O H-bonds.


2016 ◽  
Vol 29 (5) ◽  
pp. 055003 ◽  
Author(s):  
Priya Maheshwari ◽  
D Dutta ◽  
T Muthulakshmi ◽  
B Chakraborty ◽  
N Raje ◽  
...  

Sign in / Sign up

Export Citation Format

Share Document