Evidence map›Paper›PMID 40715098›Full record

ArticleNature communications2025

Ancestral sequence reconstruction as a tool for structural analysis of modular polyketide synthases.

Taichi Chisuga, Shota Takinami, Zengwei Liao, Masayuki Karasawa, Naruhiko Adachi, Masato Kawasaki, Toshio Moriya, Toshiya Senda, Tohru Terada, Fumitaka Kudo and 4 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

14 authors.

Taichi ChisugaGraduate School of Integrated Pharmaceutical and Nutritional Science, University of Shizuoka, Shizuoka, Japan.
Shota TakinamiGraduate School of Integrated Pharmaceutical and Nutritional Science, University of Shizuoka, Shizuoka, Japan.
Zengwei LiaoGraduate School of Agricultural and Life Science, The University of Tokyo, Tokyo, Japan.
Masayuki KarasawaGraduate School of Agricultural and Life Science, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0003-0803-999X
Naruhiko AdachiStructural Biology Research Center, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Ibaraki, Japan.ORCID http://orcid.org/0000-0003-1539-6696
Masato KawasakiStructural Biology Research Center, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Ibaraki, Japan.
Toshio MoriyaStructural Biology Research Center, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Ibaraki, Japan.ORCID http://orcid.org/0000-0001-7226-5487
Toshiya SendaStructural Biology Research Center, Institute of Materials Structure Science, High Energy Accelerator Research Organization (KEK), Ibaraki, Japan.ORCID http://orcid.org/0000-0002-5153-928X
Tohru TeradaGraduate School of Agricultural and Life Science, The University of Tokyo, Tokyo, Japan.
Fumitaka KudoDepartment of Chemistry, Tokyo Institute of Technology (Institute of Science Tokyo), Tokyo, Japan.
Tadashi EguchiDepartment of Chemistry, Tokyo Institute of Technology (Institute of Science Tokyo), Tokyo, Japan.ORCID http://orcid.org/0000-0002-7830-7104
Shogo NakanoGraduate School of Integrated Pharmaceutical and Nutritional Science, University of Shizuoka, Shizuoka, Japan. snakano@u-shizuoka-ken.ac.jp.ORCID http://orcid.org/0000-0002-6614-7158
Sohei ItoGraduate School of Integrated Pharmaceutical and Nutritional Science, University of Shizuoka, Shizuoka, Japan. itosohei@u-shizuoka-ken.ac.jp.ORCID http://orcid.org/0000-0002-9937-3100
Akimasa MiyanagaDepartment of Chemistry, Tokyo Institute of Technology (Institute of Science Tokyo), Tokyo, Japan. amiyanaga@g.ecc.u-tokyo.ac.jp.ORCID http://orcid.org/0000-0003-2219-6051

Funding

MEXT | Japan Society for the Promotion of Science (JSPS) 20H02911MEXT | Japan Society for the Promotion of Science (JSPS) 21K05395MEXT | Japan Society for the Promotion of Science (JSPS) 23K19283MEXT | Japan Society for the Promotion of Science (JSPS) 24H01153MEXT | Japan Society for the Promotion of Science (JSPS) 25H01588MEXT | Japan Society for the Promotion of Science (JSPS) 25H01589MEXT | Japan Society for the Promotion of Science (JSPS) 25K01946MEXT | JST | Precursory Research for Embryonic Science and Technology (PRESTO) JPMJPR20AB
6 · The paper itself

Abstract

Modular polyketide synthases (PKSs) are large multi-domain enzymes critical for the biosynthesis of polyketide antibiotics. However, challenges with structural analysis limits our mechanistic understanding of modular PKSs. In this report, we explore the potential of ancestral sequence reconstruction (ASR) for structure analysis of target proteins. As a model, we focus on the FD-891 PKS loading module composed of ketosynthase-like decarboxylase (KS

Indexed as

Polyketide SynthasesAcyl Carrier ProteinAcyltransferasesBacterial ProteinsCarboxy-LyasesCryoelectron MicroscopyCrystallography, X-RayModels, MolecularProtein ConformationProtein DomainsAcyl Carrier ProteinAcyltransferasesBacterial ProteinsCarboxy-LyasesPolyketide Synthases

Identifiers

PMID40715098
PMCPMC12297275

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Registered trials

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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.