Evidence map›Paper›PMID 40892049›Full record

ArticleJournal of medicinal chemistry2025

Crystallographic Fragment Screening of the Dengue Virus Polymerase Reveals Multiple Binding Sites for the Development of Non-nucleoside Antiflavivirals.

Manisha Saini, Jasmin C Aschenbrenner, Francesc Xavier Ruiz, Ashima Chopra, Anu V Chandran, Peter G Marples, Blake H Balcomb, Daren Fearon, Frank von Delft, Eddy Arnold

Abstract read
In one paragraph

Article in Journal of medicinal chemistry, 2025. 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
  2. How many crystal structures do you need to trust your docking results?bioRxiv : the preprint server for biology · 2025
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Manisha SainiCenter for Advanced Biotechnology and Medicine, Rutgers, the State University of New Jersey, Piscataway, New Jersey 08854, United States.
Jasmin C AschenbrennerDiamond Light Source, Harwell Science and Innovation Campus, Fermi Avenue, Didcot OX11 0DE, U.K.
Francesc Xavier RuizCenter for Advanced Biotechnology and Medicine, Rutgers, the State University of New Jersey, Piscataway, New Jersey 08854, United States.ORCID 0000-0002-0457-0030
Ashima ChopraCenter for Advanced Biotechnology and Medicine, Rutgers, the State University of New Jersey, Piscataway, New Jersey 08854, United States.
Anu V ChandranDiamond Light Source, Harwell Science and Innovation Campus, Fermi Avenue, Didcot OX11 0DE, U.K.
Peter G MarplesDiamond Light Source, Harwell Science and Innovation Campus, Fermi Avenue, Didcot OX11 0DE, U.K.
Blake H BalcombDiamond Light Source, Harwell Science and Innovation Campus, Fermi Avenue, Didcot OX11 0DE, U.K.
Daren FearonDiamond Light Source, Harwell Science and Innovation Campus, Fermi Avenue, Didcot OX11 0DE, U.K.ORCID 0000-0003-3529-7863
Frank von DelftDiamond Light Source, Harwell Science and Innovation Campus, Fermi Avenue, Didcot OX11 0DE, U.K.
Eddy ArnoldCenter for Advanced Biotechnology and Medicine, Rutgers, the State University of New Jersey, Piscataway, New Jersey 08854, United States.ORCID 0000-0003-2612-9622

Funding

Research Project 1: Coronavirus antiviral lead development and combination testingU19AI171292 · NIAID · UNIV OF NORTH CAROLINA CHAPEL HILL · PI BARIC, RALPH S, WILLSON, TIMOTHY M · 2022 to 2022
$65.5M
STRUCTURES OF HIV REVERSE TRANSCRIPTASE WITH SUBSTRATESR01AI027690 · NIAID · UNIV OF MED/DENT NJ-R W JOHNSON MED SCH · PI EDWARD ARNOLD · 1989 to 2026
$4.3M
NIAID NIH HHS R01 AI027690NIAID NIH HHS U19 AI171292
6 · The paper itself

Abstract

Dengue viruses (DENVs) infect approximately 400 million people each year, and currently, there are no effective therapeutics available. To explore potential starting points for antiviral drug development, we conducted a large-scale crystallographic fragment screen targeting the RNA-dependent RNA polymerase (RdRp) domain of the nonstructural protein 5 (NS5) from DENV serotype 2. Our screening, which involved 1108 fragments, identified 60 hit compounds across various known binding sites, including the active site, N pocket, and RNA tunnel. Additionally, we discovered a novel binding site and a fragment-binding hot spot in thumb site II. These structural findings open amenable avenues for developing non-nucleoside inhibitors and offer valuable insights for future structure-based drug design aimed at DENV and other flaviviral RdRps.

Indexed as

Antiviral AgentsDengue VirusRNA-Dependent RNA PolymeraseViral Nonstructural ProteinsBinding SitesCrystallography, X-RayHumansModels, MolecularAntiviral AgentsNS5 protein, dengue virusRNA-Dependent RNA PolymeraseViral Nonstructural Proteins

Identifiers

PMID40892049
PMCPMC12434669

What OpenQuestion holds

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LicenceCC BY
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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.