Evidence map›Paper›PMID 34213885›Full record

ArticleJournal of medicinal chemistry2021

Structure-Guided Design of Conformationally Constrained Cyclohexane Inhibitors of Severe Acute Respiratory Syndrome Coronavirus-2 3CL Protease.

Chamandi S Dampalla, Yunjeong Kim, Naemi Bickmeier, Athri D Rathnayake, Harry Nhat Nguyen, Jian Zheng, Maithri M Kashipathy, Matthew A Baird, Kevin P Battaile, Scott Lovell and 3 more

Open access · greenAbstract read
In one paragraph

Article in Journal of medicinal chemistry, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.

0numbers the graph read from it
0cells of the map it votes in
29citing papers in PubMed
8.1field-weighted citation impact, top 2% 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

29 citing papers in PubMed, 58 citations in OpenAlex.

  1. Review
  2. Review
  3. Identifying Inhibitor-SARS-CoV2-3CLMolecules (Basel, Switzerland) · 2025
    Article
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  5. Article
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  13. Article
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  16. Advances in research on 3C-like protease (3CLRSC medicinal chemistry · 2023
    Review
  17. Article
  18. An update on the discovery and development of reversible covalent inhibitors.Medicinal chemistry research : an international journal for rapid communications on design and mechanisms of action of biologically active agents · 2023
    Review
  19. Review
  20. Review
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

13 authors at 5 institutions in 1 country.

Chamandi S DampallaDepartment of Chemistry, Wichita State University, Wichita, Kansas 67260, United States.ORCID 0000-0002-8199-2376
Yunjeong KimDepartment of Diagnostic Medicine & Pathobiology, College of Veterinary Medicine, Kansas State University, Manhattan, Kansas 66506, United States.
Naemi BickmeierDepartment of Diagnostic Medicine & Pathobiology, College of Veterinary Medicine, Kansas State University, Manhattan, Kansas 66506, United States.
Athri D RathnayakeDepartment of Chemistry, Wichita State University, Wichita, Kansas 67260, United States.ORCID 0000-0003-2588-7624
Harry Nhat NguyenDepartment of Chemistry, Wichita State University, Wichita, Kansas 67260, United States.
Jian ZhengDepartment of Microbiology and Immunology, Carver College of Medicine, University of Iowa, Iowa City, Iowa 52242, United States.
Maithri M KashipathyProtein Structure Laboratory, The University of Kansas, Lawrence, Kansas 66047, United States.
Matthew A BairdDepartment of Chemistry, Wichita State University, Wichita, Kansas 67260, United States.
Kevin P BattaileNYX, New York Structural Biology Center, Upton, New York 11973, United States.ORCID 0000-0003-0833-3259
Scott LovellProtein Structure Laboratory, The University of Kansas, Lawrence, Kansas 66047, United States.
Stanley PerlmanDepartment of Microbiology and Immunology, Carver College of Medicine, University of Iowa, Iowa City, Iowa 52242, United States.
Kyeong-Ok ChangDepartment of Diagnostic Medicine & Pathobiology, College of Veterinary Medicine, Kansas State University, Manhattan, Kansas 66506, United States.
William C GroutasDepartment of Chemistry, Wichita State University, Wichita, Kansas 67260, United States.ORCID 0000-0001-5248-7912
Wichita State University · USKansas State University · USUniversity of Iowa · USUniversity of Kansas · USNew York Structural Biology Center · US

Funding

X-ray Scattering Technology CoreP30GM133893 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI Jean Jakoncic · 2019 to 2026
$38.6M
SARS-CoV Proteins in Heterologous Viral InfectionP01AI060699 · NIAID · UNIVERSITY OF IOWA · PI PERLMAN, STANLEY · 2004 to 2021
$21.5M
Small Molecule Protease Inhibitors against MERS-CoV and Coronaviruses of Pandemic PotentialR01AI130092 · NIAID · KANSAS STATE UNIVERSITY · PI Kyeong-Ok Chang, William Constantine Groutas · 2018 to 2026
$5.9M
Protein Structure Laboratory P30GM110761 · NIGMS · UNIVERSITY OF KANSAS LAWRENCE · PI HANZLIK, ROBERT P · 2014 to 2018
$5.6M
Role of eicosanoids in pathogenic human CoV infectionsR01AI129269 · NIAID · UNIVERSITY OF IOWA · PI Stanley Perlman · 2016 to 2026
$4.7M
Norovirus 3CL Protease-Based Anti-norovirus TherapeuticsR01AI109039 · NIAID · KANSAS STATE UNIVERSITY · PI BOWLIN, TERRY L., CHANG, KYEONG-OK · 2014 to 2018
$3.7M
Small Molecule Inhibitors Against 3C-Like Protease of SARS-CoV-2R01AI161085 · NIAID · KANSAS STATE UNIVERSITY · PI Kyeong-Ok Chang, William Constantine Groutas · 2021 to 2026
$3.7M
NIAID NIH HHS P01 AI060699NIAID NIH HHS R01 AI109039NIAID NIH HHS R01 AI129269NIAID NIH HHS R01 AI130092NIAID NIH HHS R01 AI161085NIGMS NIH HHS P30 GM110761NIGMS NIH HHS P30 GM133893
6 · The paper itself

Abstract

A series of nondeuterated and deuterated dipeptidyl aldehyde and masked aldehyde inhibitors that incorporate in their structure a conformationally constrained cyclohexane moiety was synthesized and found to potently inhibit severe acute respiratory syndrome coronavirus-2 3CL protease in biochemical and cell-based assays. Several of the inhibitors were also found to be nanomolar inhibitors of Middle East respiratory syndrome coronavirus 3CL protease. The corresponding latent aldehyde bisulfite adducts were found to be equipotent to the precursor aldehydes. High-resolution cocrystal structures confirmed the mechanism of action and illuminated the structural determinants involved in binding. The spatial disposition of the compounds disclosed herein provides an effective means of accessing new chemical space and optimizing pharmacological activity. The cellular permeability of the identified inhibitors and lack of cytotoxicity warrant their advancement as potential therapeutics for COVID-19.

Indexed as

Drug DesignAntiviral AgentsCoronavirus 3C ProteasesCOVID-19 Drug TreatmentCyclohexanesHumansMicrobial Sensitivity TestsModels, MolecularMolecular ConformationProtease InhibitorsSARS-CoV-2Antiviral AgentsCoronavirus 3C ProteasesCyclohexaneCyclohexanesProtease Inhibitors

Identifiers

PMID34213885
PMCPMC8276672
OpenAlexW3176883952

What OpenQuestion holds

Textmetadata
LicenceTDM
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.