Challenges and opportunities in cancer drug resistance

RA Ward, S Fawell, N Floc'h, V Flemington… - Chemical …, 2020 - ACS Publications
There has been huge progress in the discovery of targeted cancer therapies in recent years.
However, even for the most successful and impactful cancer drugs which have been …

The role of protein loops and linkers in conformational dynamics and allostery

E Papaleo, G Saladino, M Lambrughi… - Chemical …, 2016 - ACS Publications
Proteins are dynamic entities that undergo a plethora of conformational changes that may
take place on a wide range of time scales. These changes can be as small as the rotation of …

ALS mutations disrupt phase separation mediated by α-helical structure in the TDP-43 low-complexity C-terminal domain

AE Conicella, GH Zerze, J Mittal, NL Fawzi - Structure, 2016 - cell.com
RNA-binding protein TDP-43 mediates essential RNA processing but forms cytoplasmic
neuronal inclusions via its C-terminal domain (CTD) in amyotrophic lateral sclerosis (ALS). It …

Role of molecular dynamics and related methods in drug discovery

M De Vivo, M Masetti, G Bottegoni… - Journal of medicinal …, 2016 - ACS Publications
Molecular dynamics (MD) and related methods are close to becoming routine computational
tools for drug discovery. Their main advantage is in explicitly treating structural flexibility and …

Enhanced sampling in molecular dynamics using metadynamics, replica-exchange, and temperature-acceleration

C Abrams, G Bussi - Entropy, 2013 - mdpi.com
We review a selection of methods for performing enhanced sampling in molecular dynamics
simulations. We consider methods based on collective variable biasing and on tempering …

A structural perspective on the regulation of the epidermal growth factor receptor

E Kovacs, JA Zorn, Y Huang, T Barros… - Annual review of …, 2015 - annualreviews.org
The epidermal growth factor receptor (EGFR) is a receptor tyrosine kinase that plays a
critical role in the pathogenesis of many cancers. The structure of intact forms of this receptor …

The next tier of EGFR resistance mutations in lung cancer

HL Tumbrink, A Heimsoeth, ML Sos - Oncogene, 2021 - nature.com
EGFR mutations account for the majority of druggable targets in lung adenocarcinoma. Over
the past decades the optimization of EGFR inhibitors revolutionized the treatment options for …

Mechanisms of EGFR resistance in glioblastoma

PC Pan, RS Magge - International journal of molecular sciences, 2020 - mdpi.com
Glioblastoma (GBM) is the most common primary malignant brain tumor in adults. Despite
numerous efforts to target epidermal growth factor receptor (EGFR), commonly dysregulated …

Investigating drug–target association and dissociation mechanisms using metadynamics-based algorithms

A Cavalli, A Spitaleri, G Saladino… - Accounts of chemical …, 2015 - ACS Publications
Conspectus This Account highlights recent advances and discusses major challenges in the
field of drug-target recognition, binding, and unbinding studied using metadynamics-based …

An efficient metadynamics-based protocol to model the binding affinity and the transition state ensemble of G-protein-coupled receptor ligands

N Saleh, P Ibrahim, G Saladino… - Journal of chemical …, 2017 - ACS Publications
A generally applicable metadynamics scheme for predicting the free energy profile of ligand
binding to G-protein-coupled receptors (GPCRs) is described. A common and effective …