Structure of the dimeric ATP synthase from bovine mitochondria

TE Spikes, MG Montgomery… - Proceedings of the …, 2020 - National Acad Sciences
The structure of the dimeric ATP synthase from bovine mitochondria determined in three
rotational states by electron cryo-microscopy provides evidence that the proton uptake from …

Development of constant-pH simulation methods in implicit solvent and applications in biomolecular systems

FL Barroso daSilva, LG Dias - Biophysical reviews, 2017 - Springer
Abstract pH is a critical parameter for biological and technological systems directly related
with electrical charges. It can give rise to peculiar electrostatic phenomena, which also …

[HTML][HTML] Evidence of a putative glycosaminoglycan binding site on the glycosylated SARS-CoV-2 spike protein N-terminal domain

ZP Schuurs, E Hammond, S Elli, TR Rudd… - Computational and …, 2021 - Elsevier
SARS-CoV-2 has rapidly spread throughout the world's population since its initial discovery
in 2019. The virus infects cells via a glycosylated spike protein located on its surface. The …

Structural journey of an insecticidal protein against western corn rootworm

G Marini, B Poland, C Leininger, N Lukoyanova… - Nature …, 2023 - nature.com
The broad adoption of transgenic crops has revolutionized agriculture. However, resistance
to insecticidal proteins by agricultural pests poses a continuous challenge to maintaining …

The Photoactive Excited State of the B12-Based Photoreceptor CarH

NA Miller, AK Kaneshiro, A Konar… - The Journal of …, 2020 - ACS Publications
We have used transient absorption spectroscopy in the UV–visible and X-ray regions to
characterize the excited state of CarH, a protein photoreceptor that uses a form of B12 …

New solution decomposition and minimization schemes for Poisson–Boltzmann equation in calculation of biomolecular electrostatics

D Xie - Journal of Computational Physics, 2014 - Elsevier
Abstract The Poisson–Boltzmann equation (PBE) is one widely-used implicit solvent
continuum model in the calculation of electrostatic potential energy for biomolecules in ionic …

Charge shielding prevents aggregation of supercharged GFP variants at high protein concentration

JR Laber, BJ Dear, ML Martins, DE Jackson… - Molecular …, 2017 - ACS Publications
Understanding protein stability is central to combatting protein aggregation diseases and
developing new protein therapeutics. At the high concentrations often present in biological …

Cytoplasmic dynein binding, run length, and velocity are guided by long-range electrostatic interactions

L Li, J Alper, E Alexov - Scientific reports, 2016 - nature.com
Dyneins are important molecular motors involved in many essential biological processes,
including cargo transport along microtubules, mitosis, and in cilia. Dynein motility involves …

Nicotinic Acetylcholine Receptors Are Novel Targets of APETx-like Toxins from the Sea Anemone Heteractis magnifica

RS Kalina, IE Kasheverov, SG Koshelev, OV Sintsova… - Toxins, 2022 - mdpi.com
The nicotinic acetylcholine receptors (nAChRs) are prototypical ligand-gated ion channels,
provide cholinergic signaling, and are modulated by various venom toxins and drugs in …

SurfPB: A GPU-Accelerated Electrostatic Calculation and Visualization Tool for Biomolecules

J Liao, Z Shu, J Gao, M Wu, C Chen - Journal of Chemical …, 2023 - ACS Publications
In this work, we present SurfPB as a useful tool for the study of biomolecules. It can do many
typical calculations, including the molecular surface, electrostatic potential, solvation free …