Evidence map›Paper›PMID 29281938›Full record

ArticleJournal of biomolecular structure & dynamics2018

Pharmacophore-based virtual screening of catechol-o-methyltransferase (COMT) inhibitors to combat Alzheimer's disease.

Chirag N Patel, John J Georrge, Krunal M Modi, Moksha B Narechania, Daxesh P Patel, Frank J Gonzalez, Himanshu A Pandya

Open access · greenAbstract read
In one paragraph

Article in Journal of biomolecular structure & dynamics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.

0numbers the graph read from it
0cells of the map it votes in
31citing papers in PubMed
6.4field-weighted citation impact, top 3% 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

31 citing papers in PubMed, 82 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

7 authors at 5 institutions in 3 countries.

Chirag N Patela Department of Botany, Bioinformatics and Climate Change Impacts Management , University School of Sciences, Gujarat University , Ahmedabad 380 009 , Gujarat , India.
John J Georrgeb Department of Bioinformatics , Christ College , Rajkot 360 005 , Gujarat , India.
Krunal M Modic J. Heyrovský Institute of Physical Chemistry , Academy of Sciences of the Czech Republic , Dolejškova 2155/3, 182 23, Prague 8 , Czech Republic.
Moksha B Narechaniad Human Genetics Division, Department of Zoology, BMTC and HG , University School of Sciences (USSC), Gujarat University , Ahmedabad 380009 , Gujarat , India.
Daxesh P Patele Laboratory of Metabolism, Center for Cancer Research , National Cancer Institute, National Institutes of Health , Rockville , MD , USA.
Frank J Gonzaleze Laboratory of Metabolism, Center for Cancer Research , National Cancer Institute, National Institutes of Health , Rockville , MD , USA.
Himanshu A Pandyaa Department of Botany, Bioinformatics and Climate Change Impacts Management , University School of Sciences, Gujarat University , Ahmedabad 380 009 , Gujarat , India.
Gujarat University · INCenter for Cancer Research · USChrist University · INCzech Academy of Sciences, J. Heyrovský Institute of Physical Chemistry · CZNational Institutes of Health · US

Funding

Xenobiotic receptorsZIABC005562 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI GONZALEZ, FRANK J · 2009 to 2025
$26.9M
Xenobiotic ReceptorsZIABC005708 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI GONZALEZ, FRANK J · 2009 to 2025
$16.4M
Xenobiotic-Metabolizing EnzymesZ01BC005562 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI GONZALEZ, FRANK J · 1996 to 2008
$1.3M
Intramural NIH HHS Z01 BC005562
6 · The paper itself

Abstract

Alzheimer's disease (AD) is one of the most significant neurodegenerative disorders and its symptoms mostly appear in aged people. Catechol-o-methyltransferase (COMT) is one of the known target enzymes responsible for AD. With the use of 23 known inhibitors of COMT, a query has been generated and validated by screening against the database of 1500 decoys to obtain the GH score and enrichment value. The crucial features of the known inhibitors were evaluated by the online ZINC Pharmer to identify new leads from a ZINC database. Five hundred hits were retrieved from ZINC Pharmer and by ADMET (absorption, distribution, metabolism, excretion, and toxicity) filtering by using FAF-Drug-3 and 36 molecules were considered for molecular docking. From the COMT inhibitors, opicapone, fenoldopam, and quercetin were selected, while ZINC63625100_413 ZINC39411941_412, ZINC63234426_254, ZINC63637968_451, and ZINC64019452_303 were chosen for the molecular dynamics simulation analysis having high binding affinity and structural recognition. This study identified the potential COMT inhibitors through pharmacophore-based inhibitor screening leading to a more complete understanding of molecular-level interactions.

Indexed as

High-Throughput Screening AssaysAlzheimer DiseaseBinding SitesCatechol O-MethyltransferaseCatechol O-Methyltransferase InhibitorsDatabases, PharmaceuticalGene ExpressionHumansKineticsLigandsMolecular Docking SimulationMolecular Dynamics SimulationNootropic AgentsProtein BindingProtein Conformation, alpha-HelicalProtein Conformation, beta-StrandCatechol O-MethyltransferaseCatechol O-Methyltransferase InhibitorsCOMT protein, humanLigandsNootropic AgentsAD; Alzheimer’s diseaseADMETADMET; Absorption, Distribution, Metabolism, Excretion, and ToxicityAlzheimer’s disease (AD)AR; Aromatic Ringcatechol-o-methyltransferase (COMT)COMT; Catechol-O-MethyltransferaseDNC; 3, 5-dinitrocatecholDUDE; A Database of Useful (Docking) Decoys-EnhancedFAF; Drug3-Free ADME-Tox Filtering ToolGH; Güner-HenryHBA; Hydrogen Bond AcceptorHBD; Hydrogen Bond DonorHYP; HydrophobicMD; Molecular DynamicsMg+2; Magnesium ionMMFF94; Merck Molecular Force Field94molecular dynamicsPDB; Protein Data BankPD; Parkinson’s diseasepharmacophoreRDF; Radial Distribution FunctionRMSD; Root-mean-square-deviationRMSF; Root-mean-square FluctuationsSAM; S-Adenosyl L- MethionineYASARA; Yet Another Scientific Artificial Reality ApplicationZINC39411941_412; (N-[3-[(2R)-5-benzoyl-2H-benzimidazol-2-yl]phenyl]cyclopropanecarboxamide)ZINC63234426_254; ((4S)-4-(2H-benzimidazol-2-yl)-1-(1-naphthyl) pyrrolidin-2-one)ZINC63625100_413; ((2R)-N-[3-[2-(2H-benzimidazol-2-yl)ethyl]phenyl]-2H-indole-2-carboxamide)ZINC63637968_451; (N-[2-(2H-benzimidazol-2-yl)phenyl]-4-benzylbenzamide)ZINC64019452_303; (2-(2H-benzimidazol-2-yl)-N-phenethyl-benzamide)ZINC pharmer

Identifiers

PMID29281938
PMCPMC6371058
OpenAlexW2778728953

What OpenQuestion holds

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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.