ArticleBiophysical journal2017
Optimal Compartmentalization Strategies for Metabolic Microcompartments.
Article in Biophysical journal, 2017. 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.
- Complete enzyme clustering enhances coenzyme Q biosynthesis via substrate channeling.Nature communications · 2026Article
- Carrier-Free Enzyme Immobilization for High-Density Catalytic Architectures in Flow Biocatalysis.JACS Au · 2026Review
- Yeast Stress Response to Synthetic Constructs.ACS synthetic biology · 2026Review
- Engineered strains as living factories: efficient biosynthesis and modification of natural products via synthetic biology and one-pot chemical tandem reactions.Frontiers in microbiology · 2026Review
- Control of encounter kinetics by chemically active droplets.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Structure and encapsulation of carbonic anhydrase within the α-carboxysome.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Cellular view of metabolism: metabolic biomolecular condensates.The New phytologist · 2025Review
- Sticky enzymes: increased metabolic efficiency via substrate-dependent enzyme clustering.PRX life · 2025Article
- Atomic view of photosynthetic metabolite permeability pathways and confinement in synthetic carboxysome shells.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Exploring Emergent Properties in Enzymatic Reaction Networks: Design and Control of Dynamic Functional Systems.Chemical reviews · 2024Review
- Article
- Redox Biology and Liver Fibrosis.International journal of molecular sciences · 2023Review
- Peroxisomal compartmentalization of amino acid biosynthesis reactions imposes an upper limit on compartment size.Nature communications · 2023Article
- From Protein Film Electrochemistry to Nanoconfined Enzyme Cascades and the Electrochemical Leaf.Chemical reviews · 2023Review
- Pore structure controls stability and molecular flux in engineered protein cages.Science advances · 2022Article
- A generalized kinetic model for compartmentalization of organometallic catalysis.Chemical science · 2022Article
- Inside a Shell-Organometallic Catalysis Inside Encapsulin Nanoreactors.Angewandte Chemie (International ed. in English) · 2021Article
- Metabolic channeling: predictions, deductions, and evidence.Molecular cell · 2021Review
- Non-associative phase separation in an evaporating droplet as a model for prebiotic compartmentalization.Nature communications · 2021Article
- Efficacy analysis of compartmentalization for ambient CHChemical science · 2020Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Intracellular compartmentalization of cooperating enzymes is a strategy that is frequently used by cells. Segregation of enzymes that catalyze sequential reactions can alleviate challenges such as toxic pathway intermediates, competing metabolic reactions, and slow reaction rates. Inspired by nature, synthetic biologists also seek to encapsulate engineered metabolic pathways within vesicles or proteinaceous shells to enhance the yield of industrially and pharmaceutically useful products. Although enzymatic compartments have been extensively studied experimentally, a quantitative understanding of the underlying design principles is still lacking. Here, we study theoretically how the size and enzymatic composition of compartments should be chosen so as to maximize the productivity of a model metabolic pathway. We find that maximizing productivity requires compartments larger than a certain critical size. The enzyme density within each compartment should be tuned according to a power-law scaling in the compartment size. We explain these observations using an analytically solvable, well-mixed approximation. We also investigate the qualitatively different compartmentalization strategies that emerge in parameter regimes where this approximation breaks down. Our results suggest that the different sizes and enzyme packings of α- and β-carboxysomes each constitute an optimal compartmentalization strategy given the properties of their respective protein shells.
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