Antiviral fibrils of self-assembled peptides with tunable compositions

J Dodd-o, A Roy, Z Siddiqui, R Jafari, F Coppola… - Nature …, 2024 - nature.com
The lasting threat of viral pandemics necessitates the development of tailorable first-
response antivirals with specific but adaptive architectures for treatment of novel viral …

Molecular basis of the new COVID-19 target neuropilin-1 in complex with SARS-CoV-2 S1 C-end rule peptide and small-molecule antagonists

M Klaewkla, T Charoenwongpaiboon… - Journal of Molecular …, 2021 - Elsevier
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), responsible for causing
the current coronavirus 2019 (COVID-19) pandemic, uses its spike (S1) protein for host cell …

Robust classification of protein variation using structural modelling and large-scale data integration

EH Baugh, R Simmons-Edler, CL Müller… - Nucleic acids …, 2016 - academic.oup.com
Existing methods for interpreting protein variation focus on annotating mutation
pathogenicity rather than detailed interpretation of variant deleteriousness and frequently …

PON-tstab: protein variant stability predictor. Importance of training data quality

Y Yang, S Urolagin, A Niroula, X Ding, B Shen… - International journal of …, 2018 - mdpi.com
Several methods have been developed to predict effects of amino acid substitutions on
protein stability. Benchmark datasets are essential for method training and testing and have …

ALDELE: All-purpose deep learning toolkits for predicting the biocatalytic activities of enzymes

X Wang, D Quinn, TS Moody… - Journal of Chemical …, 2024 - ACS Publications
Rapidly predicting enzyme properties for catalyzing specific substrates is essential for
identifying potential enzymes for industrial transformations. The demand for sustainable …

Construction of highly active and stable recombinant nattokinase by engineered bacteria and computational design

L Wang, J Meng, X Yu, J Wang, Y Zhang… - Archives of Biochemistry …, 2024 - Elsevier
Nattokinase (NK) is an enzyme that has been recognized as a new potential thrombolytic
drug due to its strong thrombolytic activity. However, it is difficult to maintain the enzyme …

MIP-MAP: High-Throughput Mapping of Caenorhabditis elegans Temperature-Sensitive Mutants via Molecular Inversion Probes

CA Mok, V Au, OA Thompson, ML Edgley… - Genetics, 2017 - academic.oup.com
Mutants remain a powerful means for dissecting gene function in model organisms such as
Caenorhabditis elegans. Massively parallel sequencing has simplified the detection of …

Rational re-design of Lactobacillus reuteri 121 inulosucrase for product chain length control

T Charoenwongpaiboon, M Klaewkla, S Chunsrivirot… - RSC …, 2019 - pubs.rsc.org
Fructooligosaccharides (FOSs) are well-known prebiotics that are widely used in the food,
beverage and pharmaceutical industries. Inulosucrase (EC 2.4. 1.9) can potentially be used …

High-Throughput Cloning of Temperature-Sensitive Caenorhabditis elegans Mutants with Adult Syncytial Germline Membrane Architecture Defects

J Lowry, J Yochem, CH Chuang… - G3: Genes …, 2015 - academic.oup.com
The adult Caenorhabditis elegans hermaphrodite gonad consists of two mirror-symmetric U-
shaped arms, with germline nuclei located peripherally in the distal regions of each arm. The …

Light-dependent N-end rule-mediated disruption of protein function in Saccharomyces cerevisiae and Drosophila melanogaster

LM Stevens, G Kim, T Koromila, JW Steele… - PLoS …, 2021 - journals.plos.org
Here we describe the development and characterization of the photo-N-degron, a peptide
tag that can be used in optogenetic studies of protein function in vivo. The photo-N-degron …