[HTML][HTML] Driving forces and structural determinants of steric zipper peptide oligomer formation elucidated by atomistic simulations

D Matthes, V Gapsys, BL de Groot - Journal of molecular biology, 2012 - Elsevier
Understanding the structural and energetic requirements of non-fibrillar oligomer formation
harbors the potential to decipher an important yet still elusive part of amyloidogenic peptide …

Mapping the conformational dynamics and pathways of spontaneous steric zipper peptide oligomerization

D Matthes, V Gapsys, V Daebel, BL de Groot - PloS one, 2011 - journals.plos.org
The process of protein misfolding and self-assembly into various, polymorphic aggregates is
associated with a number of important neurodegenerative diseases. Only recently, crystal …

An atomistic view of amyloidogenic self-assembly: structure and dynamics of heterogeneous conformational states in the pre-nucleation phase

D Matthes, V Gapsys, JT Brennecke, BL de Groot - Scientific Reports, 2016 - nature.com
The formation of well-defined filamentous amyloid structures involves a polydisperse
collection of oligomeric states for which relatively little is known in terms of structural …

Exploring the early steps of amyloid peptide aggregation by computers

N Mousseau, P Derreumaux - Accounts of chemical research, 2005 - ACS Publications
The assembly of normally soluble proteins into amyloid fibrils is a hallmark of
neurodegenerative diseases. Because protein aggregation is very complex, involving a …

Multi-eGO: An in silico lens to look into protein aggregation kinetics at atomic resolution

E Scalone, L Broggini, C Visentin… - Proceedings of the …, 2022 - National Acad Sciences
Protein aggregation into amyloid fibrils is the archetype of aberrant biomolecular self-
assembly processes, with more than 50 associated diseases that are mostly uncurable …

Defining a physical basis for diversity in protein self-assemblies using a minimal model

S Ranganathan, SK Maji… - Journal of the American …, 2016 - ACS Publications
Self-assembly of proteins into ordered, fibrillar structures is a commonly observed theme in
biology. It has been observed that diverse set of proteins (eg, alpha-synuclein, insulin, TATA …

Two-step amyloid aggregation: sequential lag phase intermediates

F Castello, JM Paredes, MJ Ruedas-Rama, M Martin… - Scientific reports, 2017 - nature.com
The self-assembly of proteins into fibrillar structures called amyloid fibrils underlies the onset
and symptoms of neurodegenerative diseases, such as Alzheimer's and Parkinson's …

Understanding amyloid fibril nucleation and Aβ oligomer/drug interactions from computer simulations

P Nguyen, P Derreumaux - Accounts of chemical research, 2014 - ACS Publications
Evolution has fine-tuned proteins to accomplish a variety of tasks. Yet, with aging, some
proteins assemble into harmful amyloid aggregates associated with neurodegenerative …

Kinetic control of dimer structure formation in amyloid fibrillogenesis

W Hwang, S Zhang, RD Kamm… - Proceedings of the …, 2004 - National Acad Sciences
Amyloid fibril formation involves nonfibrillar oligomeric intermediates, which are important as
possible cytotoxic species in neurodegenerative diseases. However, their transient nature …

Self-Assembly of Amyloid-Beta (Aβ) Peptides from Solution to Near In Vivo Conditions

PH Nguyen, F Sterpone… - The Journal of Physical …, 2022 - ACS Publications
Understanding the atomistic resolution changes during the self-assembly of amyloid
peptides or proteins is important to develop compounds or conditions to alter the …