Prebiotic peptides: Molecular hubs in the origin of life

M Frenkel-Pinter, M Samanta, G Ashkenasy… - Chemical …, 2020 - ACS Publications
The fundamental roles that peptides and proteins play in today's biology makes it almost
indisputable that peptides were key players in the origin of life. Insofar as it is appropriate to …

Evolution of a highly active and enantiospecific metalloenzyme from short peptides

S Studer, DA Hansen, ZL Pianowski, PRE Mittl… - Science, 2018 - science.org
Primordial sequence signatures in modern proteins imply ancestral origins tracing back to
simple peptides. Although short peptides seldom adopt unique folds, metal ions might have …

[HTML][HTML] Searching protein space for ancient sub-domain segments

R Kolodny - Current Opinion in Structural Biology, 2021 - Elsevier
Highlights•Sub-domain segments may carry hints to the evolution of protein
domains.•Similar sub-domain segments shared among globally dissimilar domains are …

Bridging themes: short protein segments found in different architectures

R Kolodny, S Nepomnyachiy, DS Tawfik… - … biology and evolution, 2021 - academic.oup.com
The vast majority of theoretically possible polypeptide chains do not fold, let alone confer
function. Hence, protein evolution from preexisting building blocks has clear potential …

Primordial emergence of a nucleic acid-binding protein via phase separation and statistical ornithine-to-arginine conversion

LM Longo, D Despotović… - Proceedings of the …, 2020 - National Acad Sciences
De novo emergence demands a transition from disordered polypeptides into structured
proteins with well-defined functions. However, can polypeptides confer functions of …

Assembly of π-stacking helical peptides into a porous and multivariable proteomimetic framework

SL Heinz-Kunert, A Pandya, VT Dang… - Journal of the …, 2022 - ACS Publications
The evolution of proteins from simpler, self-assembled peptides provides a powerful
blueprint for the design of complex synthetic materials. Previously, peptide–metal …

Similar protein segments shared between domains of different evolutionary lineages

K Qiu, N Ben‐Tal, R Kolodny - Protein Science, 2022 - Wiley Online Library
The emergence of novel proteins, beyond these that can be readily made by duplication and
recombination of preexisting domains, is elusive. De novo emergence from random …

From peptides to proteins: coiled-coil tetramers to single-chain 4-helix bundles

EA Naudin, KI Albanese, AJ Smith, B Mylemans… - Chemical …, 2022 - pubs.rsc.org
The design of completely synthetic proteins from first principles—de novo protein design—is
challenging. This is because, despite recent advances in computational protein–structure …

[HTML][HTML] New protein families with hendecad coiled coils in the proteome of life

M Martinez-Goikoetxea, AN Lupas - Journal of Structural Biology, 2023 - Elsevier
Coiled coils are a widespread and well understood protein fold. Their short and simple
repeats underpin considerable structural and functional diversity. The vast majority of coiled …

Seven amino acid types suffice to create the core fold of RNA polymerase

S Yagi, AK Padhi, J Vucinic, S Barbe… - Journal of the …, 2021 - ACS Publications
The extant complex proteins must have evolved from ancient short and simple ancestors.
The double-ψ β-barrel (DPBB) is one of the oldest protein folds and conserved in various …