Simple mechanisms for the evolution of protein complexity

AS Pillai, GKA Hochberg, JW Thornton - Protein science, 2022 - Wiley Online Library
Proteins are tiny models of biological complexity: specific interactions among their many
amino acids cause proteins to fold into elaborate structures, assemble with other proteins …

Protein supramolecular structures: from self-assembly to nanovaccine design

X Zottig, M Côté-Cyr, D Arpin, D Archambault… - Nanomaterials, 2020 - mdpi.com
Life-inspired protein supramolecular assemblies have recently attracted considerable
attention for the development of next-generation vaccines to fight against infectious …

Interactions of the receptor binding domain of SARS-CoV-2 variants with hACE2: Insights from molecular docking analysis and molecular dynamic simulation

I Celik, R Yadav, Z Duzgun, S Albogami… - Biology, 2021 - mdpi.com
Simple Summary Since the onset of the COVID-19 pandemic in late 2019, SARS-CoV-2 has
evolved via genetic changes, resulting in numerous variants of concern (VOCs) and interest …

Effect of structural stability of lipase in acetonitrile on its catalytic activity in EGCG esterification reaction: FTIR and MD simulation

S Wang, L Mo, B Wu, C Ma, H Wang - International Journal of Biological …, 2024 - Elsevier
Abstract In this study,(-)-Epigallocatechin-3-O-gallate (EGCG) esterification reaction was
catalyzed by Novozym 435, Lipozyme RM, Lipozyme TLIM, and lipase Amano 30SD in …

In silico study of SARS‐CoV‐2 spike protein RBD and human ACE‐2 affinity dynamics across variants and Omicron subvariants

S Abeywardhana, M Premathilaka… - Journal of medical …, 2023 - Wiley Online Library
The coronavirus disease 2019 virus outbreak continues worldwide, with many variants
emerging, some of which are considered variants of concern (VOCs). The WHO designated …

A computational comparative analysis of the binding mechanism of molnupiravir's active metabolite to RNA‐dependent RNA polymerase of wild‐type and Delta …

I Celik, TE Tallei - Journal of Cellular Biochemistry, 2022 - Wiley Online Library
The antiviral drug molnupiravir targets the SARS‐CoV‐2 RNA‐dependent RNA polymerase
(RdRP) enzyme. Early treatment with molnupiravir reduced the risk of hospitalization or …

BODIPY-based fluorescent probes for sensing protein surface-hydrophobicity

N Dorh, S Zhu, KB Dhungana, R Pati, FT Luo, H Liu… - Scientific reports, 2015 - nature.com
Mapping surface hydrophobic interactions in proteins is key to understanding molecular
recognition, biological functions and is central to many protein misfolding diseases. Herein …

Computational prediction of the effect of mutations in the receptor-binding domain on the interaction between SARS-CoV-2 and human ACE2

I Celik, A Khan, FM Dwivany, Fatimawali, DQ Wei… - Molecular Diversity, 2022 - Springer
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) causing COVID-19
continues to mutate. Numerous studies have indicated that this viral mutation, particularly in …

In silico screening of bioactive compounds of representative seaweeds to inhibit SARS-CoV-2 ACE2-bound omicron B. 1.1. 529 spike protein trimer

M Bharathi, BS Sivamaruthi, P Kesika, S Thangaleela… - Marine Drugs, 2022 - mdpi.com
Omicron is an emerging SARS-CoV-2 variant, evolved from the Indian delta variant B. 1.617.
2, which is currently infecting worldwide. The spike glycoprotein, an important molecule in …

Comparative structural analysis of fruit and stem bromelain from Ananas comosus

ANM Ramli, NHA Manas, AAA Hamid, HA Hamid… - Food chemistry, 2018 - Elsevier
Cysteine proteases in pineapple (Ananas comosus) plants are phytotherapeutical agents
that demonstrate anti-edematous, anti-inflammatory, anti-thrombotic and fibrinolytic …