ArticleScience (New York, N.Y.)2009
Three-dimensional structural view of the central metabolic network of Thermotoga maritima.
Article in Science (New York, N.Y.), 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 94 papers.
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94 citing papers in PubMed.
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- Identification of a deep-branching thermophilic clade sheds light on early bacterial evolution.Nature communications · 2023Article
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- Toward the solution of the protein structure prediction problem.The Journal of biological chemistry · 2021Review
- Binary Metabolic Phenotypes and Phenotype Diversity Metrics for the Functional Characterization of Microbial Communities.Frontiers in microbiology · 2021Article
- Structure of the sodium-dependent phosphate transporter reveals insights into human solute carrier SLC20.Science advances · 2020Article
- Expanding the uses of genome-scale models with protein structures.Molecular systems biology · 2019Article
- Metabolic models and gene essentiality data reveal essential and conserved metabolism in prokaryotes.PLoS computational biology · 2018Article
- Uncoupling Fermentative Synthesis of Molecular Hydrogen from Biomass Formation in Thermotoga maritima.Applied and environmental microbiology · 2018Article
- ssbio: a Python framework for structural systems biology.Bioinformatics (Oxford, England) · 2018Article
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- The RCSB protein data bank: integrative view of protein, gene and 3D structural information.Nucleic acids research · 2017Article
- A Multi-scale Computational Platform to Mechanistically Assess the Effect of Genetic Variation on Drug Responses in Human Erythrocyte Metabolism.PLoS computational biology · 2016Article
34 more citing papers are in PubMed but not listed here.
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13 authors.
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Abstract
Metabolic pathways have traditionally been described in terms of biochemical reactions and metabolites. With the use of structural genomics and systems biology, we generated a three-dimensional reconstruction of the central metabolic network of the bacterium Thermotoga maritima. The network encompassed 478 proteins, of which 120 were determined by experiment and 358 were modeled. Structural analysis revealed that proteins forming the network are dominated by a small number (only 182) of basic shapes (folds) performing diverse but mostly related functions. Most of these folds are already present in the essential core (approximately 30%) of the network, and its expansion by nonessential proteins is achieved with relatively few additional folds. Thus, integration of structural data with networks analysis generates insight into the function, mechanism, and evolution of biological networks.
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