Evidence map›Paper›PMID 38744914›Full record

ArticleNature chemistry2024

Structural basis of the Meinwald rearrangement catalysed by styrene oxide isomerase.

Basavraj Khanppnavar, Joel P S Choo, Peter-Leon Hagedoorn, Grigory Smolentsev, Saša Štefanić, Selvapravin Kumaran, Dirk Tischler, Fritz K Winkler, Volodymyr M Korkhov, Zhi Li and 2 more

Abstract read
In one paragraph

Article in Nature chemistry, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
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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.

Basavraj Khanppnavar *Laboratory of Biomolecular Research, Division of Biology and Chemistry, Paul Scherrer Institute, Villigen, Switzerland.ORCID 0000-0002-6637-3550
Joel P S Choo *Department of Chemical and Biomolecular Engineering, National University of Singapore, Singapore, Singapore.
Peter-Leon Hagedoorn *Department of Biotechnology, Delft University of Technology, Delft, The Netherlands.ORCID 0000-0001-6342-2022
Grigory SmolentsevOperando Spectroscopy, Paul Scherrer Institute, Villigen, Switzerland.ORCID 0000-0001-7348-7276
Saša ŠtefanićNanobody Service Facility. AgroVet-Strickhof, University of Zurich, Lindau, Switzerland.ORCID 0000-0001-7367-1831
Selvapravin KumaranMicrobial Biotechnology, Ruhr University Bochum, Bochum, Germany.
Dirk TischlerMicrobial Biotechnology, Ruhr University Bochum, Bochum, Germany.ORCID 0000-0002-6288-2403
Fritz K WinklerDepartment of Biology, ETH Zürich, Switzerland.
Volodymyr M KorkhovLaboratory of Biomolecular Research, Division of Biology and Chemistry, Paul Scherrer Institute, Villigen, Switzerland. volodymyr.korkhov@psi.ch.ORCID 0000-0002-0962-9433
Zhi LiDepartment of Chemical and Biomolecular Engineering, National University of Singapore, Singapore, Singapore. chelz@nus.edu.sg.ORCID 0000-0001-7370-2562
Richard A KammererLaboratory of Biomolecular Research, Division of Biology and Chemistry, Paul Scherrer Institute, Villigen, Switzerland. richard.kammerer@psi.ch.ORCID 0000-0003-4570-5197
Xiaodan LiLaboratory of Biomolecular Research, Division of Biology and Chemistry, Paul Scherrer Institute, Villigen, Switzerland. xiao.li@psi.ch.ORCID 0000-0001-8647-7317

Funding

Ministry of Education - Singapore (MOE) A-0009183-01-00Ministry of Education - Singapore (MOE) MOE 2016-T2-2-140)National Research Foundation Singapore (National Research Foundation-Prime Minister's office, Republic of Singapore) NRF-CRP17-2017-03
6 · The paper itself

Abstract

Membrane-bound styrene oxide isomerase (SOI) catalyses the Meinwald rearrangement-a Lewis-acid-catalysed isomerization of an epoxide to a carbonyl compound-and has been used in single and cascade reactions. However, the structural information that explains its reaction mechanism has remained elusive. Here we determine cryo-electron microscopy (cryo-EM) structures of SOI bound to a single-domain antibody with and without the competitive inhibitor benzylamine, and elucidate the catalytic mechanism using electron paramagnetic resonance spectroscopy, functional assays, biophysical methods and docking experiments. We find ferric haem b bound at the subunit interface of the trimeric enzyme through H58, where Fe(III) acts as the Lewis acid by binding to the epoxide oxygen. Y103 and N64 and a hydrophobic pocket binding the oxygen of the epoxide and the aryl group, respectively, position substrates in a manner that explains the high regio-selectivity and stereo-specificity of SOI. Our findings can support extending the range of epoxide substrates and be used to potentially repurpose SOI for the catalysis of new-to-nature Fe-based chemical reactions.

Indexed as

Epoxy CompoundsBiocatalysisCatalysisCryoelectron MicroscopyIsomerasesMolecular Docking SimulationEpoxy CompoundsIsomerasesstyrene oxide

Identifiers

PMID38744914
PMCPMC11374702

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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.