Conformational diversity and protein evolution–a 60-year-old hypothesis revisited

LC James, DS Tawfik - Trends in biochemical sciences, 2003 - cell.com
Complex organisms have evolved from a limited number of primordial genes and proteins.
However, the mechanisms by which the earliest proteins evolved and then served as the …

Formamide and the origin of life

R Saladino, C Crestini, S Pino, G Costanzo… - Physics of life …, 2012 - Elsevier
The complexity of life boils down to the definition:“self-sustained chemical system capable of
undergoing Darwinian evolution”(Joyce, 1994)[1]. The term “self-sustained” implies a set of …

A universal trend of amino acid gain and loss in protein evolution

IK Jordan, FA Kondrashov, IA Adzhubei, YI Wolf… - Nature, 2005 - nature.com
Amino acid composition of proteins varies substantially between taxa and, thus, can evolve.
For example, proteins from organisms with (G+ C)-rich (or (A+ T)-rich) genomes contain …

The triplet code from first principles

EN Trifonov - Journal of Biomolecular structure and dynamics, 2004 - Taylor & Francis
Abstract Temporal order (“chronology”) of appearance of amino acids and their respective
codons on evolutionary scene is reconstructed. A consensus chronology of amino acids is …

One scorpion, two venoms: Prevenom of Parabuthus transvaalicus acts as an alternative type of venom with distinct mechanism of action

B Inceoglu, J Lango, J **g, L Chen… - Proceedings of the …, 2003 - National Acad Sciences
Scorpion venom is a complex mixture of salts, small molecules, peptides, and proteins.
Scorpions employ this valuable tool in several sophisticated ways for subduing prey …

Moonlighting genes harbor antisense ORFs that encode potential membrane proteins

KE Thomas, PA Gagniuc, E Gagniuc - Scientific Reports, 2023 - nature.com
Moonlighting genes encode for single polypeptide molecules that perform multiple and often
unrelated functions. These genes occur across all domains of life. Their ubiquity and …

Reused Protein Segments Linked to Functional Dynamics

Y Kutlu, G Axel, R Kolodny, N Ben-Tal… - Molecular Biology and …, 2024 - academic.oup.com
Protein space is characterized by extensive recurrence, or “reuse,” of parts, suggesting that
new proteins and domains can evolve by mixing-and-matching of existing segments. From …

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 …

The onset and early evolution of life

MJ Russell, AJ Hall - 2006 - pubs.geoscienceworld.org
The tension between CO 2 dissolved at relatively high atmospheric pressure in the Hadean
ocean, and H 2 generated as ocean water oxidized ferrous iron during convection in the …

[HTML][HTML] Living in trinity of extremes: genomic and proteomic signatures of halophilic, thermophilic, and pH adaptation

A Amangeldina, ZW Tan, IN Berezovsky - Current Research in Structural …, 2024 - Elsevier
Since nucleic acids and proteins of unicellular prokaryotes are directly exposed to extreme
environmental conditions, it is possible to explore the genomic-proteomic compositional …