De novo protein design by deep network hallucination

I Anishchenko, SJ Pellock, TM Chidyausiku… - Nature, 2021 - nature.com
There has been considerable recent progress in protein structure prediction using deep
neural networks to predict inter-residue distances from amino acid sequences,–. Here we …

Codon influence on protein expression in E. coli correlates with mRNA levels

G Boël, R Letso, H Neely, WN Price, KH Wong, M Su… - Nature, 2016 - nature.com
Degeneracy in the genetic code, which enables a single protein to be encoded by a
multitude of synonymous gene sequences, has an important role in regulating protein …

Principles for designing ideal protein structures

N Koga, R Tatsumi-Koga, G Liu, R **ao, TB Acton… - Nature, 2012 - nature.com
Unlike random heteropolymers, natural proteins fold into unique ordered structures.
Understanding how these are encoded in amino-acid sequences is complicated by …

[PDF][PDF] Characterization of proteins by size-exclusion chromatography coupled to multi-angle light scattering (SEC-MALS)

D Some, H Amartely, A Tsadok, M Lebendiker - J. Vis. Exp, 2019 - researchgate.net
Analytical size-exclusion chromatography (SEC), commonly used for the determination of
the molecular weight of proteins and protein-protein complexes in solution, is a relative …

Determination of solution structures of proteins up to 40 kDa using CS-Rosetta with sparse NMR data from deuterated samples

OF Lange, P Rossi, NG Sgourakis, Y Song… - Proceedings of the …, 2012 - pnas.org
We have developed an approach for determining NMR structures of proteins over 20 kDa
that utilizes sparse distance restraints obtained using transverse relaxation optimized …

Principles for designing proteins with cavities formed by curved β sheets

E Marcos, B Basanta, TM Chidyausiku, Y Tang… - Science, 2017 - science.org
Active sites and ligand-binding cavities in native proteins are often formed by curved β
sheets, and the ability to control β-sheet curvature would allow design of binding proteins …

[HTML][HTML] A high through-put platform for recombinant antibodies to folded proteins

M Hornsby, M Paduch, S Miersch, A Sääf… - Molecular & Cellular …, 2015 - Elsevier
Antibodies are key reagents in biology and medicine, but commercial sources are rarely
recombinant and thus do not provide a permanent and renewable resource. Here, we …

Mid-infrared chemical imaging of intracellular tau fibrils using fluorescence-guided computational photothermal microscopy

J Zhao, L Jiang, A Matlock, Y Xu, J Zhu, H Zhu… - Light: Science & …, 2023 - nature.com
Amyloid proteins are associated with a broad spectrum of neurodegenerative diseases.
However, it remains a grand challenge to extract molecular structure information from …

In-cell solid-state NMR studies of antimicrobial peptides

F Separovic, DW Keizer, MA Sani - Frontiers in Medical Technology, 2020 - frontiersin.org
Antimicrobial peptides (AMPs) have attracted attention as alternatives to classic antibiotics
due to their expected limited pressure on bacterial resistance mechanisms. Yet, their modes …

Aspirin's active metabolite salicylic acid targets high mobility group box 1 to modulate inflammatory responses

HW Choi, M Tian, F Song, E Venereau, A Preti… - Molecular …, 2015 - Springer
Salicylic acid (SA) and its derivatives have been used for millennia to reduce pain, fever and
inflammation. In addition, prophylactic use of acetylsalicylic acid, commonly known as …