Evidence map›Paper›PMID 38042860›Full record

ArticleNature communications2023

Mechanistic manifold in a hemoprotein-catalyzed cyclopropanation reaction with diazoketone.

Donggeon Nam, John-Paul Bacik, Rahul L Khade, Maria Camila Aguilera, Yang Wei, Juan D Villada, Michael L Neidig, Yong Zhang, Nozomi Ando, Rudi Fasan

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
3.3field-weighted citation impact, top 7% 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

8 citing papers in PubMed, 22 citations in OpenAlex.

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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

10 authors at 5 institutions in 2 countries.

Donggeon Nam *Department of Chemistry, University of Rochester, Rochester, NY, 14627, USA.
John-Paul Bacik *Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA.
Rahul L Khade *Department of Chemistry and Chemical Biology, Stevens Institute of Technology, Hoboken, NJ, 07030, USA.
Maria Camila AguileraDepartment of Chemistry, University of Rochester, Rochester, NY, 14627, USA.
Yang WeiDepartment of Chemistry and Chemical Biology, Stevens Institute of Technology, Hoboken, NJ, 07030, USA.ORCID 0000-0002-8979-5967
Juan D VilladaDepartment of Chemistry, University of Rochester, Rochester, NY, 14627, USA.
Michael L NeidigInorganic Chemistry Laboratory, Department of Chemistry, University of Oxford, South Parks Road, Oxford, OX1 3QR, UK. michael.neidig@chem.ox.ac.uk.ORCID 0000-0002-2300-3867
Yong ZhangDepartment of Chemistry and Chemical Biology, Stevens Institute of Technology, Hoboken, NJ, 07030, USA. yong.zhang@stevens.edu.ORCID 0000-0001-7207-6416
Nozomi AndoDepartment of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA. nozomi.ando@cornell.edu.ORCID 0000-0001-7062-1644
Rudi FasanDepartment of Chemistry, University of Rochester, Rochester, NY, 14627, USA. rudi.fasan@utdallas.edu.ORCID 0000-0003-4636-9578
Stevens Institute of Technology · USCornell University · USThe University of Texas at Dallas · USUniversity of Rochester · USUniversity of Oxford · GB

Funding

A Synchrotron Radiation Structural Biology ResourcesP30GM133894 · NIGMS · STANFORD UNIVERSITY · PI Ritimukta Sarangi · 2020 to 2026
$43.3M
User Training and OutreachP30GM124165 · NIGMS · CORNELL UNIVERSITY · PI STEVEN E EALICK · 2018 to 2026
$34.2M
Research Training in Complementary and Integrative MedicineT32AT000051 · NCCIH · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI GLORIA Y YEH · 1999 to 2026
$10.2M
Selective P450 Oxidation Catalysts for Synthesis of Bioactive MoleculesR01GM098628 · NIGMS · UNIVERSITY OF TEXAS DALLAS · PI FASAN, RUDI · 2012 to 2024
$4.7M
Iron-Catalyzed Cross-CouplingR01GM111480 · NIGMS · UNIVERSITY OF ROCHESTER · PI NEIDIG, MICHAEL L · 2014 to 2022
$3.1M
Matrix-Assisted Laser Desorption Ionization Time-of-Flight (MALDI-TOF/TOF) Mass SpectrometerS10OD030302 · OD · UNIVERSITY OF ROCHESTER · PI NILSSON, BRADLEY L. · 2021 to 2021
$304k
GINSENG'S EFFECTS ON MRNA PROFILES IN A DIABETES-2 MODELF32AT000051 · NCCIH · UNIVERSITY OF TEXAS AUSTIN · PI PAN, SHUJIA J · 1999 to 2001
$96k
NCCIH NIH HHS F32 AT000051NCCIH NIH HHS T32 AT000051NIGMS NIH HHS P30 GM124165NIGMS NIH HHS P30 GM133894NIGMS NIH HHS R01 GM098628NIGMS NIH HHS R01 GM111480NIH HHS S10 OD030302
6 · The paper itself

Abstract

Hemoproteins have recently emerged as promising biocatalysts for new-to-nature carbene transfer reactions. However, mechanistic understanding of the interplay between productive and unproductive pathways in these processes is limited. Using spectroscopic, structural, and computational methods, we investigate the mechanism of a myoglobin-catalyzed cyclopropanation reaction with diazoketones. These studies shed light on the nature and kinetics of key catalytic steps in this reaction, including the formation of an early heme-bound diazo complex intermediate, the rate-determining nature of carbene formation, and the cyclopropanation mechanism. Our analyses further reveal the existence of a complex mechanistic manifold for this reaction that includes a competing pathway resulting in the formation of an N-bound carbene adduct of the heme cofactor, which was isolated and characterized by X-ray crystallography, UV-Vis, and Mössbauer spectroscopy. This species can regenerate the active biocatalyst, constituting a non-productive, yet non-destructive detour from the main catalytic cycle. These findings offer a valuable framework for both mechanistic analysis and design of hemoprotein-catalyzed carbene transfer reactions.

Indexed as

MethaneMyoglobinCatalysisHemecarbeneHemeMethaneMyoglobin

Identifiers

PMID38042860
PMCPMC10693563
OpenAlexW4389266218

What OpenQuestion holds

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LicenceCC BY
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.