Evidence map›Paper›PMID 32631553›Full record

ArticleBioorganic & medicinal chemistry letters2020

Structural basis for the stabilization of amyloidogenic immunoglobulin light chains by hydantoins.

Nicholas L Yan, Diogo Santos-Martins, Enrico Rennella, Brittany B Sanchez, Jason S Chen, Lewis E Kay, Ian A Wilson, Gareth J Morgan, Stefano Forli, Jeffery W Kelly

Open access · greenAbstract read
In one paragraph

Article in Bioorganic & medicinal chemistry letters, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
1.4field-weighted citation impact, top 19% 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

14 citing papers in PubMed, 22 citations in OpenAlex.

  1. Article
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  4. Review
  5. Conformational inhibitors of protein aggregation.Current opinion in structural biology · 2023
    Review
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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 3 institutions in 2 countries.

Nicholas L YanDepartment of Chemistry, The Scripps Research Institute, La Jolla, CA 92037, USA.
Diogo Santos-MartinsDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.
Enrico RennellaDepartments of Molecular Genetics, Biochemistry and Chemistry, The University of Toronto, Toronto, ON M5S1A8, Canada.
Brittany B SanchezAutomated Synthesis Facility, The Scripps Research Institute, La Jolla, CA 92037, USA.
Jason S ChenAutomated Synthesis Facility, The Scripps Research Institute, La Jolla, CA 92037, USA.
Lewis E KayDepartments of Molecular Genetics, Biochemistry and Chemistry, The University of Toronto, Toronto, ON M5S1A8, Canada; The Hospital for Sick Children, Program in Molecular Medicine, 555 University Avenue, Toronto, ON M5G1X8, Canada.
Ian A WilsonDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA; The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.
Gareth J MorganSection of Hematology and Medical Oncology, Department of Medicine, Boston University School of Medicine, Boston, MA 02118, USA; The Amyloidosis Center, Boston University School of Medicine, Boston, MA 02118, USA. Electronic address: gjmorgan@bu.edu.
Stefano ForliDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA. Electronic address: forli@scripps.edu.
Jeffery W KellyDepartment of Chemistry, The Scripps Research Institute, La Jolla, CA 92037, USA; The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA. Electronic address: jkelly@scripps.edu.
Scripps Research Institute · USUniversity of Toronto · CABoston University · US

Funding

User Training and OutreachP30GM124169 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI PAUL David ADAMS, Gregory L Hura · 2017 to 2026
$28.6M
AutoDock Suite: Next Generation Environment for Drug DesignR01GM069832 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI FORLI, STEFANO · 2004 to 2025
$10.9M
Probing the Biochemical Mechanisms of Amyloid DiseaseR01DK046335 · NIDDK · SCRIPPS RESEARCH INSTITUTE, THE · PI KELLY, JEFFERY W · 1998 to 2025
$8.8M
Probing the biochemical mechanism of amyloid diseaseR37DK046335 · NIDDK · SCRIPPS RESEARCH INSTITUTE, THE · PI KELLY, JEFFERY W · 2006 to 2015
$5.9M
NIDDK NIH HHS R01 DK046335NIDDK NIH HHS R37 DK046335NIGMS NIH HHS P30 GM124169NIGMS NIH HHS R01 GM069832
6 · The paper itself

Abstract

Misfolding and aggregation of immunoglobulin light chains (LCs) leads to the degeneration of post-mitotic tissue in the disease immunoglobulin LC amyloidosis (AL). We previously reported the discovery of small molecule kinetic stabilizers of the native dimeric structure of full-length LCs, which slow or stop the LC aggregation cascade at the outset. A predominant structural category of kinetic stabilizers emerging from the high-throughput screen are coumarins substituted at the 7-position, which bind at the interface between the two variable domains of the light chain dimer. Here, we report the binding mode of another, more polar, LC kinetic stabilizer chemotype, 3,5-substituted hydantoins. Computational docking, solution nuclear magnetic resonance experiments, and x-ray crystallography show that the aromatic substructure emerging from the hydantoin 3-position occupies the same LC binding site as the coumarin ring. Notably, the hydantoin ring extends beyond the binding site mapped out by the coumarin hits. The hydantoin ring makes hydrogen bonds with both LC monomers simultaneously. The alkyl substructure at the hydantoin 5-position partially occupies a novel binding pocket proximal to the pocket occupied by the coumarin substructure. Overall, the hydantoin structural data suggest that a larger area of the LC variable-domain-variable-domain dimer interface is amenable to small molecule binding than previously demonstrated, which should facilitate development of more potent full-length LC kinetic stabilizers.

Indexed as

Crystallography, X-RayDose-Response Relationship, DrugHumansHydantoinsHydrogen BondingImmunoglobulin Light ChainsKineticsModels, MolecularMolecular StructureProtein StabilityStructure-Activity RelationshipHydantoinsImmunoglobulin Light Chains

Identifiers

PMID32631553
PMCPMC7402200
OpenAlexW3035909825

What OpenQuestion holds

Textmetadata
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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.