Systematic characterization of indel variants using a yeast-based protein folding sensor

S Larsen-Ledet, S Lindemose, A Panfilova, S Gersing… - Structure, 2024 - cell.com
Gene variants resulting in insertions or deletions of amino acid residues (indels) have
important consequences for evolution and are often linked to disease, yet, compared to …

Insertion–Deletion Events Are Depleted in Protein Regions with Predicted Secondary Structure

Y Yang, MV Braga, MD Dean - Genome Biology and Evolution, 2024 - academic.oup.com
A fundamental goal in evolutionary biology and population genetics is to understand how
selection shapes the fate of new mutations. Here, we test the null hypothesis that insertion …

Cancer-Related Mutations in the Sam Domains of EphA2 Receptor and Ship2 Lipid Phosphatase: A Computational Study

M Vincenzi, FA Mercurio, I Autiero, M Leone - Molecules, 2024 - mdpi.com
The lipid phosphatase Ship2 interacts with the EphA2 receptor by forming a heterotypic Sam
(sterile alpha motif)–Sam complex. Ship2 works as a negative regulator of receptor …

Pathogenicity Prediction of GABAA Receptor Missense Variants

YJ Wang, GH Vu, TW Mu - Israel Journal of Chemistry, 2024 - Wiley Online Library
Variants in the genes encoding gamma‐aminobutyric acid type A (GABAA) receptor
subunits are associated with epilepsy. To date, over 1000 clinical variants have been …

Dark nanodiscs for evaluating membrane protein thermostability by differential scanning fluorimetry

JA Selvasingh, EF McDonald, PD Neufer… - Biophysical …, 2024 - cell.com
Measuring protein thermostability provides valuable information on the biophysical rules that
govern the structure-energy relationships of proteins. However, such measurements remain …

[HTML][HTML] Mind the gap

S Larsen-Ledet, A Stein - Structure, 2023 - Elsevier
Amino acid deletions are high-risk, high-reward mutations, yet structural consequences are
poorly understood. In this issue of Structure, Woods et al.(2023) individually deleted 65 …

Benchmarking AlphaFold2-RosettaRelax for Predicting the Impact of Indel Variants in DHFR

H Lanters - 2024 - studenttheses.uu.nl
In this study, we evaluated a computational method combining AlphaFold2 (AF2) and
RosettaRelax (RR) to predict the impact of insertion and deletion (indel) mutations on the …

[HTML][HTML] Dark nanodiscs as a model membrane for evaluating membrane protein thermostability by differential scanning fluorimetry

JA Selvasingh, EF McDonald, JR Mckinney, J Meiler… - bioRxiv, 2023 - ncbi.nlm.nih.gov
Measuring protein thermostability provides valuable information on the biophysical rules that
govern structure-energy relationships of proteins. However, such measurements remain a …