Protein design: From the aspect of water solubility and stability

R Qing, S Hao, E Smorodina, D Jin, A Zalevsky… - Chemical …, 2022 - ACS Publications
Water solubility and structural stability are key merits for proteins defined by the primary
sequence and 3D-conformation. Their manipulation represents important aspects of the …

Water in nanopores and biological channels: a molecular simulation perspective

CI Lynch, S Rao, MSP Sansom - Chemical reviews, 2020 - ACS Publications
This Review explores the dynamic behavior of water within nanopores and biological
channels in lipid bilayer membranes. We focus on molecular simulation studies, alongside …

Computational design of transmembrane pores

C Xu, P Lu, TM Gamal El-Din, XY Pei, MC Johnson… - Nature, 2020 - nature.com
Transmembrane channels and pores have key roles in fundamental biological processes
and in biotechnological applications such as DNA nanopore sequencing,–, resulting in …

De novo design of a nanopore for single-molecule detection that incorporates a β-hairpin peptide

K Shimizu, B Mijiddorj, M Usami, I Mizoguchi… - Nature …, 2022 - nature.com
The amino-acid sequence of a protein encodes information on its three-dimensional
structure and specific functionality. De novo design has emerged as a method to manipulate …

Highly shape-and size-tunable membrane nanopores made with DNA

Y Xing, A Dorey, L Jayasinghe, S Howorka - Nature Nanotechnology, 2022 - nature.com
Membrane nanopores are key for molecular transport in biology, portable DNA sequencing,,–
, label-free single-molecule analysis,,,,,,,,–and nanomedicine. Transport traditionally relies …

Sparks of function by de novo protein design

AE Chu, T Lu, PS Huang - Nature biotechnology, 2024 - nature.com
Abstract Information in proteins flows from sequence to structure to function, with each step
causally driven by the preceding one. Protein design is founded on inverting this process …

A reversibly gated protein-transporting membrane channel made of DNA

S Dey, A Dorey, L Abraham, Y Xing, I Zhang… - Nature …, 2022 - nature.com
Controlled transport of biomolecules across lipid bilayer membranes is of profound
significance in biological processes. In cells, cargo exchange is mediated by dedicated …

Nanopore DNA sequencing technologies and their applications towards single-molecule proteomics

A Dorey, S Howorka - Nature chemistry, 2024 - nature.com
Sequencing of nucleic acids with nanopores has emerged as a powerful tool offering rapid
readout, high accuracy, low cost and portability. This label-free method for sequencing at the …

Constructing ion channels from water-soluble α-helical barrels

AJ Scott, A Niitsu, HT Kratochvil, EJM Lang… - Nature …, 2021 - nature.com
The design of peptides that assemble in membranes to form functional ion channels is
challenging. Specifically, hydrophobic interactions must be designed between the peptides …

The hallmarks of living systems: towards creating artificial cells

NA Yewdall, AF Mason, JCM Van Hest - Interface Focus, 2018 - royalsocietypublishing.org
Despite the astonishing diversity and complexity of living systems, they all share five
common hallmarks: compartmentalization, growth and division, information processing …