[HTML][HTML] The world of stable ribonucleoproteins and its mapping with Grad-seq and related approaches

M Gerovac, J Vogel, A Smirnov - Frontiers in Molecular Biosciences, 2021 - frontiersin.org
Macromolecular complexes of proteins and RNAs are essential building blocks of cells.
These stable supramolecular particles can be viewed as minimal biochemical units whose …

[PDF][PDF] Recognition of the TDP-43 nuclear localization signal by importin α1/β

SG Doll, H Meshkin, AJ Bryer, F Li, YH Ko… - Cell reports, 2022 - cell.com
Cytoplasmic mislocalization of the TAR-DNA binding protein of 43 kDa (TDP-43) leads to
large, insoluble aggregates that are a hallmark of amyotrophic lateral sclerosis and …

Cryo‐EM structure of the chain‐elongating E3 ubiquitin ligase UBR5

Z Hodáková, I Grishkovskaya, HL Brunner… - The EMBO …, 2023 - embopress.org
UBR5 is a nuclear E3 ligase that ubiquitinates a vast range of substrates for proteasomal
degradation. This HECT domain‐containing ubiquitin ligase has recently been identified as …

Creative destruction: New protein folds from old

C Alvarez-Carreño, RJ Gupta… - Proceedings of the …, 2022 - National Acad Sciences
Mechanisms of emergence and divergence of protein folds pose central questions in
biological sciences. Incremental mutation and stepwise adaptation explain relationships …

A widespread family of WYL-domain transcriptional regulators co-localizes with diverse phage defence systems and islands

DM Picton, JD Harling-Lee, SJ Duffner… - Nucleic Acids …, 2022 - academic.oup.com
Bacteria are under constant assault by bacteriophages and other mobile genetic elements.
As a result, bacteria have evolved a multitude of systems that protect from attack. Genes …

Outer membrane protein evolution

R Dhar, JSG Slusky - Current opinion in structural biology, 2021 - Elsevier
Highlights•Most OMBBs evolved from an ancestral β-hairpin structure through a distinct
divergent evolutionary pathway.•Eukaryotic OMBBs evolved from that same l β-hairpin, but …

[PDF][PDF] Structure of the human UBR5 E3 ubiquitin ligase

F Wang, Q He, W Zhan, Z Yu, E Finkin-Groner, X Ma… - Structure, 2023 - cell.com
The human UBR5 is a single polypeptide chain homology to E6AP C terminus (HECT)-type
E3 ubiquitin ligase essential for embryonic development in mammals. Dysregulated UBR5 …

[HTML][HTML] Functional analysis of Rossmann-like domains reveals convergent evolution of topology and reaction pathways

KE Medvedev, LN Kinch, RD Schaeffer… - PLoS computational …, 2019 - journals.plos.org
Rossmann folds are ancient, frequently diverged domains found in many biological reaction
pathways where they have adapted for different functions. Consequently, discernment and …

Fold evolution before LUCA: common ancestry of SH3 domains and OB domains

C Alvarez-Carreño, PI Penev, AS Petrov… - … Biology and Evolution, 2021 - academic.oup.com
SH3 and OB are the simplest, oldest, and most common protein domains within the
translation system. SH3 and OB domains are β-barrels that are structurally similar but are …

[HTML][HTML] Revisiting evolutionary trajectories and the organization of the Pleolipoviridae family

T Alarcón-Schumacher, D Lücking, S Erdmann - Plos Genetics, 2023 - journals.plos.org
Archaeal pleomorphic viruses belonging to the Pleolipoviridae family represent an
enigmatic group as they exhibit unique genomic features and are thought to have evolved …