Evidence map›Paper›PMID 34121297›Full record

ArticleAngewandte Chemie (International ed. in English)2021

Molecular Basis for Two Stereoselective Diels-Alderases that Produce Decalin Skeletons*.

Keisuke Fujiyama, Naoki Kato, Suyong Re, Kiyomi Kinugasa, Kohei Watanabe, Ryo Takita, Toshihiko Nogawa, Tomoya Hino, Hiroyuki Osada, Yuji Sugita and 2 more

Open access · hybridAbstract read
In one paragraph

Article in Angewandte Chemie (International ed. in English), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
1.5field-weighted citation impact, top 17% of its field
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

13 citing papers in PubMed, 23 citations in OpenAlex.

  1. Article
  2. Review
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  7. Peroxidase-induced C-N bond formationGreen chemistry : an international journal and green chemistry resource : GC · 2023
    Article
  8. EnzymaticJournal of the American Chemical Society · 2023
    Article
  9. β-Lactams from the Ocean.Marine drugs · 2023
    Review
  10. Article
  11. Review
  12. Article
  13. 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

12 authors at 6 institutions in 2 countries.

Keisuke FujiyamaDepartment of Chemistry and Biotechnology, Graduate School of Engineering, Tottori University, 4-101 Koyama-cho, Minami, Tottori, 680-8552, Japan.ORCID 0000-0003-0960-353X
Naoki KatoNatural Product Biosynthesis Research Unit, RIKEN Center for Sustainable Research Science, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan.ORCID 0000-0003-4410-4090
Suyong ReLaboratory for Biomolecular Function Simulation, RIKEN Center for Biosystems Dynamics Research, 2-2-3 Minatojima-minami-machi, Chuo-ku, Kobe, Hyogo, 650-0047, Japan.ORCID 0000-0002-3752-6554
Kiyomi KinugasaNatural Product Biosynthesis Research Unit, RIKEN Center for Sustainable Research Science, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan.
Kohei WatanabeGraduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan.ORCID 0000-0002-3146-5439
Ryo TakitaGraduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan.ORCID 0000-0003-4104-9890
Toshihiko NogawaChemical Biology Research Group, RIKEN Center for Sustainable Research Science, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan.ORCID 0000-0003-1270-5270
Tomoya HinoDepartment of Chemistry and Biotechnology, Graduate School of Engineering, Tottori University, 4-101 Koyama-cho, Minami, Tottori, 680-8552, Japan.ORCID 0000-0002-8813-4622
Hiroyuki OsadaChemical Biology Research Group, RIKEN Center for Sustainable Research Science, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan.ORCID 0000-0002-3606-4925
Yuji SugitaLaboratory for Biomolecular Function Simulation, RIKEN Center for Biosystems Dynamics Research, 2-2-3 Minatojima-minami-machi, Chuo-ku, Kobe, Hyogo, 650-0047, Japan.ORCID 0000-0001-9738-9216
Shunji TakahashiNatural Product Biosynthesis Research Unit, RIKEN Center for Sustainable Research Science, 2-1 Hirosawa, Wako, Saitama, 351-0198, Japan.ORCID 0000-0003-1684-9298
Shingo NaganoDepartment of Chemistry and Biotechnology, Graduate School of Engineering, Tottori University, 4-101 Koyama-cho, Minami, Tottori, 680-8552, Japan.ORCID 0000-0002-9292-8759
RIKEN Center for Sustainable Resource Science · JPThe University of Tokyo · JPTottori University · JPNational Institute of Biomedical Innovation, Health and Nutrition · JPPioneer (United States) · USSetsunan University · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Enzymes catalyzing [4+2] cycloaddition have attracted increasing attention because of their key roles in natural product biosynthesis. Here, we solved the X-ray crystal structures of a pair of decalin synthases, Fsa2 and Phm7, that catalyze intramolecular [4+2] cycloadditions to form enantiomeric decalin scaffolds during biosynthesis of the HIV-1 integrase inhibitor equisetin and its stereochemical opposite, phomasetin. Computational modeling, using molecular dynamics simulations as well as quantum chemical calculations, demonstrates that the reactions proceed through synergetic conformational constraints assuring transition state-like substrates folds and their stabilization by specific protein-substrate interactions. Site-directed mutagenesis experiments verified the binding models. Intriguingly, the flexibility of bound substrates is largely different in two enzymes, suggesting the distinctive mechanism of dynamics regulation behind these stereoselective reactions. The proposed reaction mechanism herein deepens the basic understanding how these enzymes work but also provides a guiding principle to create artificial enzymes.

Indexed as

Models, MolecularMolecular ConformationNaphthalenesPyrrolidinonesStereoisomerismTetrahydronaphthalenesdecalinequisetinNaphthalenesPyrrolidinonesTetrahydronaphthalenes[4+2] cycloadditionbiosynthesismolecular dynamicsnatural productsstereoselectivity

Identifiers

PMID34121297
PMCPMC8518865
OpenAlexW3171810102

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

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.