ArticleJournal of molecular evolution2011
Proteome evolution and the metabolic origins of translation and cellular life.
Article in Journal of molecular evolution, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
35 citing papers in PubMed, 64 citations in OpenAlex.
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- Genome-Wide Identification and Analysis of theInternational journal of molecular sciences · 2023Article
- Environmental Stability and Its Importance for the Emergence of Darwinian Evolution.Life (Basel, Switzerland) · 2023Article
- Origin, Diversity, and Multiple Roles of Enzymes with Metallo-β-Lactamase Fold from Different Organisms.Cells · 2023Review
- Protein folds as synapomorphies of the tree of life.Evolution; international journal of organic evolution · 2022Article
- Evolution of networks of protein domain organization.Scientific reports · 2021Article
- The Compressed Vocabulary of Microbial Life.Frontiers in microbiology · 2021Article
- Dual RNase and β-lactamase Activity of a Single Enzyme Encoded in Archaea.Life (Basel, Switzerland) · 2020Article
- Pervasive convergent evolution and extreme phenotypes define chaperone requirements of protein homeostasis.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- ABCF ATPases Involved in Protein Synthesis, Ribosome Assembly and Antibiotic Resistance: Structural and Functional Diversification across the Tree of Life.Journal of molecular biology · 2019Article
- Human metallo-β-lactamase enzymes degrade penicillin.Scientific reports · 2019Article
- Article
- Piecemeal Buildup of the Genetic Code, Ribosomes, and Genomes from Primordial tRNA Building Blocks.Life (Basel, Switzerland) · 2016Article
- A Dynamic Model for the Evolution of Protein Structure.Journal of molecular evolution · 2016Article
- tRNA Core Hypothesis for the Transition from the RNA World to the Ribonucleoprotein World.Life (Basel, Switzerland) · 2016Article
- A phylogenomic data-driven exploration of viral origins and evolution.Science advances · 2015Article
- Computing the origin and evolution of the ribosome from its structure - Uncovering processes of macromolecular accretion benefiting synthetic biology.Computational and structural biotechnology journal · 2015Review
- Global patterns of protein domain gain and loss in superkingdoms.PLoS computational biology · 2014Article
- A calibrated chronology of biochemistry reveals a stem line of descent responsible for planetary biodiversity.Frontiers in genetics · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The origin of life has puzzled molecular scientists for over half a century. Yet fundamental questions remain unanswered, including which came first, the metabolic machinery or the encoding nucleic acids. In this study we take a protein-centric view and explore the ancestral origins of proteins. Protein domain structures in proteomes are highly conserved and embody molecular functions and interactions that are needed for cellular and organismal processes. Here we use domain structure to study the evolution of molecular function in the protein world. Timelines describing the age and function of protein domains at fold, fold superfamily, and fold family levels of structural complexity were derived from a structural phylogenomic census in hundreds of fully sequenced genomes. These timelines unfold congruent hourglass patterns in rates of appearance of domain structures and functions, functional diversity, and hierarchical complexity, and revealed a gradual build up of protein repertoires associated with metabolism, translation and DNA, in that order. The most ancient domain architectures were hydrolase enzymes and the first translation domains had catalytic functions for the aminoacylation and the molecular switch-driven transport of RNA. Remarkably, the most ancient domains had metabolic roles, did not interact with RNA, and preceded the gradual build-up of translation. In fact, the first translation domains had also a metabolic origin and were only later followed by specialized translation machinery. Our results explain how the generation of structure in the protein world and the concurrent crystallization of translation and diversified cellular life created further opportunities for proteomic diversification.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.