Molecular dynamics simulations of early steps in RNA-mediated conversion of prions

Oligomerization of FVFLM peptides and their ability to inhibit beta amyloid peptides aggregation: consideration as a possible model

(2017) M. Kouza et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

New Molecular Insight into Mechanism of Evolution of Mammalian Synthetic Prions

(2016) Natallia Makarava et al.   AMERICAN JOURNAL OF PATHOLOGY

Preformed template fluctuations promote fibril formation: Insights from lattice and all-atom models

(2015) Maksim Kouza et al.   JOURNAL OF CHEMICAL PHYSICS

Stability of Osaka Mutant and Wild-Type Fibril Models

(2015) Workalemahu M. Berhanu et al.   JOURNAL OF PHYSICAL CHEMISTRY B

The I-TASSER Suite: protein structure and function prediction

(2015) Jianyi Yang et al.   NATURE METHODS

A Targeting Modality for Destruction of RNA Polymerase I that Possesses Anticancer Activity

(2014) Karita Peltonen et al.   CANCER CELL

Rational Stabilization of Helix 2 of the Prion Protein Prevents Its Misfolding and Oligomerization

(2014) Jogender Singh et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Molecular Docking Simulations Provide Insights in the Substrate Binding Sites and Possible Substrates of the ABCC6 Transporter

(2014) Mohammad Jakir Hosen et al.   PLoS One

Protein misfolding, congophilia, oligomerization, and defective amyloid processing in preeclampsia

(2014) I. A. Buhimschi et al.   Science Translational Medicine

Molecular Mechanism of Prion Protein Oligomerization at Atomic Resolution

(2013) Kai Schlepckow et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Prion Nucleation Site Unmasked by Transient Interaction with Phospholipid Cofactor

(2013) Ashley A. Zurawel et al.   BIOCHEMISTRY

GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit

(2013) Sander Pronk et al.   BIOINFORMATICS

Dissection of Conformational Conversion Events during Prion Amyloid Fibril Formation Using Hydrogen Exchange and Mass Spectrometry

(2013) Jogender Singh et al.   JOURNAL OF MOLECULAR BIOLOGY

PrPC Controls via Protein Kinase A the Direction of Synaptic Plasticity in the Immature Hippocampus

(2013) M. D. Caiati et al.   JOURNAL OF NEUROSCIENCE

Mechanism of IAPP amyloid fibril formation involves an intermediate with a transient  -sheet

(2013) L. E. Buchanan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Integrity of Helix 2-Helix 3 Domain of the PrP Protein Is Not Mandatory for Prion Replication

(2012) Khalid Salamat et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mechanisms for the Insertion of Toxic, Fibril-like β-Amyloid Oligomers into the Membrane

(2012) Hyunbum Jang et al.   Journal of Chemical Theory and Computation

Optimization of the Additive CHARMM All-Atom Protein Force Field Targeting Improved Sampling of the Backbone ϕ, ψ and Side-Chain χ1 and χ2 Dihedral Angles

(2012) Robert B. Best et al.   Journal of Chemical Theory and Computation

β-Barrel Mobility Underlies Closure of the Voltage-Dependent Anion Channel

(2012) Ulrich Zachariae et al.   STRUCTURE

Computational Electrophysiology: The Molecular Dynamics of Ion Channel Permeation and Selectivity in Atomistic Detail

(2011) Carsten Kutzner et al.   BIOPHYSICAL JOURNAL

Impact of 2′-hydroxyl sampling on the conformational properties of RNA: Update of the CHARMM all-atom additive force field for RNA

(2011) Elizabeth J. Denning et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

A Study of the α-Helical Intermediate Preceding the Aggregation of the Amino-Terminal Fragment of the β Amyloid Peptide (Aβ1–28)

(2011) Ana V. Rojas et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Photodegradation illuminates the role of polyanions in prion infectivity

(2011) Justin R. Piro et al.   Prion

Dissociation of Infectivity from Seeding Ability in Prions with Alternate Docking Mechanism

(2011) Michael B. Miller et al.   PLoS Pathogens

In Situ Photodegradation of Incorporated Polyanion Does Not Alter Prion Infectivity

(2011) Justin R. Piro et al.   PLoS Pathogens

Expression of cellular prion protein in the placentas of women with normal and preeclamptic pregnancies

(2010) Han Sung Hwang et al.   ACTA OBSTETRICIA ET GYNECOLOGICA SCANDINAVICA

The α-Helical C-Terminal Domain of Full-Length Recombinant PrP Converts to an In-Register Parallel β-Sheet Structure in PrP Fibrils: Evidence from Solid State Nuclear Magnetic Resonance

(2010) Robert Tycko et al.   BIOCHEMISTRY

Axonal prion protein is required for peripheral myelin maintenance

(2010) Juliane Bremer et al.   NATURE NEUROSCIENCE

I-TASSER: a unified platform for automated protein structure and function prediction

(2010) Ambrish Roy et al.   Nature Protocols

AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility

(2009) Garrett M. Morris et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

I-TASSER server for protein 3D structure prediction

(2008) Yang Zhang   BMC BIOINFORMATICS

P-LINCS:  A Parallel Linear Constraint Solver for Molecular Simulation

(2007) Berk Hess   Journal of Chemical Theory and Computation