Evidence map›Paper›PMID 30679605›Full record

ArticleScientific reports2019

Interactions of HLA-DR and Topoisomerase I Epitope Modulated Genetic Risk for Systemic Sclerosis.

Sirilak Kongkaew, Thanyada Rungrotmongkol, Chutintorn Punwong, Hiroshi Noguchi, Fujio Takeuchi, Nawee Kungwan, Peter Wolschann, Supot Hannongbua

Open access · goldAbstract read
In one paragraph

Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
1.1field-weighted citation impact, top 24% 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

6 citing papers in PubMed, 12 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

8 authors at 5 institutions in 3 countries.

Sirilak KongkaewProgram in Biotechnology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand.
Thanyada RungrotmongkolBiocatalyst and Environmental Biotechnology Research unit, Department of Biochemistry, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand. t.rungrotmongkol@gmail.com.
Chutintorn PunwongDepartment of Physics, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, 90110, Thailand.
Hiroshi NoguchiSchool of Pharmacy, Nihon Pharmaceutical University, Saitama, 361-0806, Japan.
Fujio TakeuchiSchool of Pharmaceutical Sciences, University of Shizuoka, Shizuoka, 422-8526, Japan.
Nawee KungwanDepartment of Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, 50200, Thailand.
Peter WolschannThe Center of Excellence in Computational Chemistry, Department of Chemistry, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand.
Supot HannongbuaThe Center of Excellence in Computational Chemistry, Department of Chemistry, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand. Supot.h@chula.ac.th.
Chulalongkorn University · THUniversity of Shizuoka · JPChiang Mai University · THPrince of Songkla University · THUniversity of Vienna · AT

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The association of systemic sclerosis with anti-Topoisomerase 1 antibody (ATASSc) with specific alleles of human leukocyte antigen (HLA)-DR has been observed among various ethnics. The anti-Topoisomerase 1 antibody is a common autoantibody in SSc with diffuse cutaneous scleroderma, which is one of the clinical subtypes of SSc. On the other hand, an immunodominant peptide of topoisomerase 1 (Top1) self-protein (residues 349-368) was reported to have strong association with ATASSc. In this study, molecular dynamics simulation was performed on the complexes of Top1 peptide with various HLA-DR subtypes divided into ATASSc-associated alleles (HLA-DRB1*08:02, HLA-DRB1*11:01 and HLA-DRB1*11:04), suspected allele (HLA-DRB5*01:02), and non-associated allele (HLA-DRB1*01:01). The unique interaction for each system was compared to the others in terms of dynamical behaviors, binding free energies and solvation effects. Our results showed that three HLA-DR/Top1 complexes of ATASSc association mostly exhibited high protein stability and increased binding efficiency without solvent interruption, in contrast to non-association. The suspected case (HLA-DRB5*01:02) binds Top1 as strongly as the ATASSc association case, which implied a highly possible risk for ATASSc development. This finding might support ATASSc development mechanism leading to a guideline for the treatment and avoidance of pathogens like Top1 self-peptide risk for ATASSc.

Indexed as

AllelesAntibodies, Anti-IdiotypicDNA Topoisomerases, Type IEpitopesGenetic Predisposition to DiseaseHLA-DRB1 ChainsHLA-DRB5 ChainsHumansMolecular Dynamics SimulationPeptidesProtein BindingProtein StabilityRisk FactorsScleroderma, SystemicAntibodies, Anti-IdiotypicDNA Topoisomerases, Type IEpitopesHLA-DRB1 ChainsHLA-DRB5 ChainsPeptides

Identifiers

PMID30679605
PMCPMC6345791
OpenAlexW2915528601

What OpenQuestion holds

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Registered trials

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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.