Vinicius Martins de Oliveira
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Explore the profile of Vinicius Martins de Oliveira including associated specialties, affiliations and a list of published articles.
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11
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61
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Recent Articles
1.
de Melo V, Rodrigues de Melo R, Rade L, Miyamoto R, Milan N, de Souza C, et al.
Biochem Biophys Res Commun
. 2024 Aug;
733:150572.
PMID: 39191187
Fungal lipolytic enzymes play crucial roles in various lipid bio-industry processes. Here, we elucidated the biochemical and structural characteristics of an unexplored fungal lipolytic enzyme (TaLip) from Thermoascus aurantiacus var....
2.
Ibrahim M, Sun X, de Oliveira V, Liu R, Clayton J, El Kilani H, et al.
bioRxiv
. 2024 Mar;
PMID: 38496596
During the continuing evolution of SARS-CoV-2, the Omicron variant of concern emerged in the second half of 2021 and has been dominant since November that year. Along with its sublineages,...
3.
Clayton J, de Oliveira V, Ibrahim M, Sun X, Mahinthichaichan P, Shen M, et al.
J Chem Inf Model
. 2023 May;
63(11):3521-3533.
PMID: 37199464
Nirmatrelvir is an orally available inhibitor of SARS-CoV-2 main protease (Mpro) and the main ingredient of Paxlovid, a drug approved by the U.S. Food and Drug Administration for high-risk COVID-19...
4.
Henderson J, Liu R, Harris J, Huang Y, de Oliveira V, Shen J
Living J Comput Mol Sci
. 2023 Feb;
4(1).
PMID: 36776714
Like temperature and pressure, solution pH is an important environmental variable in biomolecular simulations. Virtually all proteins depend on pH to maintain their structure and function. In conventional molecular dynamics...
5.
da Silva F, de Oliveira V, de Oliveira Junior A, Contessoto V, Leite V
J Phys Chem B
. 2023 Feb;
127(6):1291-1300.
PMID: 36723393
Understanding the details of a protein folding mechanism can be a challenging and complex task. One system with an interesting folding behavior is the α-spectrin domain, where the R15 folds...
6.
de Oliveira V, Liu R, Shen J
Curr Opin Struct Biol
. 2022 Nov;
77:102498.
PMID: 36410222
Many important protein functions are carried out through proton-coupled conformational dynamics. Thus, the ability to accurately model protonation states dynamically has wide-ranging implications. Over the past two decades, two main...
7.
Harris J, Liu R, de Oliveira V, Vazquez-Montelongo E, Henderson J, Shen J
J Chem Theory Comput
. 2022 Nov;
18(12):7510-7527.
PMID: 36377980
Constant pH molecular dynamics (MD) simulations sample protonation states on the fly according to the conformational environment and user specified pH conditions; however, the current accuracy is limited due to...
8.
de Oliveira V, Ibrahim M, Sun X, Hilgenfeld R, Shen J
Res Sq
. 2022 Aug;
PMID: 35982654
Nirmatrelvir is an orally available inhibitor of SARS-CoV-2 main protease (Mpro) and the main ingredient of PAXLOVID, a drug approved by FDA for high-risk COVID-19 patients. Although the prevalent Mpro...
9.
Clayton J, de Oliveira V, Ibraham M, Sun X, Mahinthichaichan P, Shen M, et al.
bioRxiv
. 2022 Aug;
PMID: 35982652
Nirmatrelvir is an orally available inhibitor of SARS-CoV-2 main protease (Mpro) and the main ingredient of PAXLOVID, a drug approved by FDA for high-risk COVID-19 patients. Recently, a rare natural...
10.
Contessoto V, Ramos F, Rodrigues de Melo R, de Oliveira V, Scarpassa J, Silva de Sousa A, et al.
Biophys J
. 2021 Apr;
120(11):2172-2180.
PMID: 33831390
Understanding the aspects that contribute to improving proteins' biochemical properties is of high relevance for protein engineering. Properties such as the catalytic rate, thermal stability, and thermal resistance are crucial...