Elucidating the Bell-Shaped Dependence of Protein Translation Activity on EF-Tu Concentration in a Reconstituted Cell-Free System Using a Mechanistic Model.

Shunnosuke Ban, Yusuke Himeoka, Ako Kagawa, Yoshihiro Shimizu, Tomoaki Matsuura, Chikara Furusawa

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Article in ACS synthetic biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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6 authors.

Shunnosuke BanDepartment of Physics, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan.

Yusuke HimeokaUniversal Biology Institute, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan.

Ako KagawaEarth-Life Science Institute, Institute of Science Tokyo, Tokyo 152-8550, Japan.

Yoshihiro ShimizuCenter for Biosystems Dynamics Research, RIKEN, 6-7-1 minatojima-minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan.ORCID 0000-0003-3499-1394

Tomoaki MatsuuraEarth-Life Science Institute, Institute of Science Tokyo, Tokyo 152-8550, Japan.ORCID 0000-0003-1015-6781

Chikara FurusawaDepartment of Physics, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan.ORCID 0000-0003-3554-4975

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Protein synthesis in cell-free protein synthesis systems often exhibits nonintuitive input-output relationships. In the PURE system, a reconstituted cell-free system, protein production peaked at low elongation factor Tu (EF-Tu) concentrations and decreased at higher concentrations, resulting in a characteristic bell-shaped profile. Here, we investigated the origin of this behavior using a detailed mechanistic model of translation in the PURE system, designated as ePURE, which describes the reaction dynamics of hundreds of molecular species and reactions. Our computational analysis suggested that excess EF-Tu sequesters the initiator tRNA (tRNA

Indexed as

Peptide Elongation Factor TuProtein BiosynthesisCell-Free SystemGuanosine TriphosphateModels, BiologicalRNA, Transfer, MetGuanosine TriphosphatePeptide Elongation Factor TuRNA, Transfer, Metcell-free protein synthesiscomputational modelprotein translation

Identifiers

PMID42206977

DOI10.1021/acssynbio.6c00333

PMCPMC13289705

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