ArticleThe Journal of biological chemistry2011
Origins of specificity and promiscuity in metabolic networks.
Article in The Journal of biological chemistry, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed.
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- Before LUCA: unearthing the chemical roots of metabolism.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Article
- Expanded Substrate Specificity in D-Amino Acid Transaminases: A Case Study of Transaminase fromInternational journal of molecular sciences · 2023Article
- Aqueous microdroplets promote C-C bond formation and sequences in the reverse tricarboxylic acid cycle.Nature ecology & evolution · 2023Article
- The evolution of strictly monofunctional naphthoquinol C-methyltransferases is vital in cyanobacteria and plastids.The Plant cell · 2023Article
- Review
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- The Transporter-Mediated Cellular Uptake and Efflux of Pharmaceutical Drugs and Biotechnology Products: How and Why Phospholipid Bilayer Transport Is Negligible in Real Biomembranes.Molecules (Basel, Switzerland) · 2021Review
- Enzyme Promiscuity Prediction Using Hierarchy-Informed Multi-Label Classification.Bioinformatics (Oxford, England) · 2021Article
- Bacterial symbionts support larval sap feeding and adult folivory in (semi-)aquatic reed beetles.Nature communications · 2020Article
- Polyesters as a Model System for Building Primitive Biologies from Non-Biological Prebiotic Chemistry.Life (Basel, Switzerland) · 2020Article
- Larger active site in an ancestral hydroxynitrile lyase increases catalytically promiscuous esterase activity.PloS one · 2020Article
- Emulating evolutionary processes to morph aureothin-type modular polyketide synthases and associated oxygenases.Nature communications · 2019Article
- Biochemical Characteristics of Microbial Enzymes and Their Significance from Industrial Perspectives.Molecular biotechnology · 2019Review
- A study on multi-omic oscillations in Escherichia coli metabolic networks.BMC bioinformatics · 2018Article
- SimCAL: a flexible tool to compute biochemical reaction similarity.BMC bioinformatics · 2018Article
- Cryptic indole hydroxylation by a non-canonical terpenoid cyclase parallels bacterial xenobiotic detoxification.Nature communications · 2017Article
- Origin of an ancient hormone/receptor couple revealed by resurrection of an ancestral estrogen.Science advances · 2017Article
- Analysis of drug-endogenous human metabolite similarities in terms of their maximum common substructures.Journal of cheminformatics · 2017Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
How enzymes have evolved to their present form is linked to the question of how pathways emerged and evolved into extant metabolic networks. To investigate this mechanism, we have explored the chemical diversity present in a largely unbiased data set of catalytic reactions processed by modern enzymes across the tree of life. In order to get a quantitative estimate of enzyme chemical diversity, we measure enzyme multispecificity or promiscuity using the reaction molecular signatures. Our main finding is that reactions that are catalyzed by a highly specific enzyme are shared by poorly divergent species, suggesting a later emergence of this function during evolution. In contrast, reactions that are catalyzed by highly promiscuous enzymes are more likely to appear uniformly distributed across species in the tree of life. From a functional point of view, promiscuous enzymes are mainly involved in amino acid and lipid metabolisms, which might be associated with the earliest form of biochemical reactions. In this way, results presented in this paper might assist us with the identification of primeval promiscuous catalytic functions contributing to life's minimal metabolism.
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