DynaMut2: Assessing changes in stability and flexibility upon single and multiple point missense mutations

CHM Rodrigues, DEV Pires, DB Ascher - Protein Science, 2021 - Wiley Online Library
Predicting the effect of missense variations on protein stability and dynamics is important for
understanding their role in diseases, and the link between protein structure and function …

Systematic evaluation of computational tools to predict the effects of mutations on protein stability in the absence of experimental structures

Q Pan, TB Nguyen, DB Ascher… - Briefings in …, 2022 - academic.oup.com
Abstract Changes in protein sequence can have dramatic effects on how proteins fold, their
stability and dynamics. Over the last 20 years, pioneering methods have been developed to …

The expanding phenotypes of cohesinopathies: one ring to rule them all!

J Piché, PP Van Vliet, M Pucéat, G Andelfinger - Cell cycle, 2019 - Taylor & Francis
Preservation and development of life depend on the adequate segregation of sister
chromatids during mitosis and meiosis. This process is ensured by the cohesin multi-subunit …

DynaMut: predicting the impact of mutations on protein conformation, flexibility and stability

CHM Rodrigues, DEV Pires… - Nucleic acids research, 2018 - academic.oup.com
Proteins are highly dynamic molecules, whose function is intrinsically linked to their
molecular motions. Despite the pivotal role of protein dynamics, their computational …

mCSM-PPI2: predicting the effects of mutations on protein–protein interactions

CHM Rodrigues, Y Myung, DEV Pires… - Nucleic acids …, 2019 - academic.oup.com
Protein–protein Interactions are involved in most fundamental biological processes, with
disease causing mutations enriched at their interfaces. Here we present mCSM-PPI2, a …

SDM: a server for predicting effects of mutations on protein stability

AP Pandurangan, B Ochoa-Montano… - Nucleic acids …, 2017 - academic.oup.com
Here, we report a webserver for the improved SDM, used for predicting the effects of
mutations on protein stability. As a pioneering knowledge-based approach, SDM has been …

Frequent transmission of the Mycobacterium tuberculosis Bei**g lineage and positive selection for the EsxW Bei**g variant in Vietnam

KE Holt, P McAdam, PVK Thai, NTT Thuong, DTM Ha… - Nature …, 2018 - nature.com
To examine the transmission dynamics of Mycobacterium tuberculosis (Mtb) isolated from
tuberculosis patients in Ho Chi Minh City, Vietnam, we sequenced the whole genomes of …

ThermoMutDB: a thermodynamic database for missense mutations

JS Xavier, TB Nguyen, M Karmarkar… - Nucleic acids …, 2021 - academic.oup.com
Proteins are intricate, dynamic structures, and small changes in their amino acid sequences
can lead to large effects on their folding, stability and dynamics. To facilitate the further …

mmCSM-PPI: predicting the effects of multiple point mutations on protein–protein interactions

CHM Rodrigues, DEV Pires… - Nucleic Acids Research, 2021 - academic.oup.com
Protein–protein interactions play a crucial role in all cellular functions and biological
processes and mutations leading to their disruption are enriched in many diseases. While a …

mCSM-membrane: predicting the effects of mutations on transmembrane proteins

DEV Pires, CHM Rodrigues… - Nucleic Acids Research, 2020 - academic.oup.com
Significant efforts have been invested into understanding and predicting the molecular
consequences of mutations in protein coding regions, however nearly all approaches have …