Evidence map›Paper›PMID 31070900›Full record

ArticleJournal of chemical information and modeling2019

HLA-DM Stabilizes the Empty MHCII Binding Groove: A Model Using Customized Natural Move Monte Carlo.

Samuel Demharter, Bernhard Knapp, Charlotte Deane, Peter Minary

Open access · hybridAbstract read
In one paragraph

Article in Journal of chemical information and modeling, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.1field-weighted citation impact, top 55% 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

1 citing paper in PubMed, 2 citations in OpenAlex.

  1. Integrative Analysis of HTNV Glycoprotein Derived MHC II Epitopes byFrontiers in cellular and infection microbiology · 2021
    Article
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

4 authors at 3 institutions in 3 countries.

Samuel DemharterBiotech Research and Innovation Centre , University of Copenhagen , Copenhagen 2200 , Denmark.ORCID 0000-0001-7352-3994
Bernhard KnappBioinformatics and Immunoinformatics Research Group, Department of Basic Sciences , International University of Catalonia , 08195 Barcelona , Spain.ORCID 0000-0002-5714-7105
Charlotte DeaneProtein Informatics Group, Department of Statistics , University of Oxford , Oxford OX1 3LB , United Kingdom.ORCID 0000-0003-1388-2252
Peter MinaryDepartment of Computer Science , University of Oxford , Oxford OX1 3QD , United Kingdom.
University of Oxford · GBUniversitat Internacional de Catalunya · ESUniversity of Copenhagen · DK

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

MHC class II molecules bind peptides derived from extracellular proteins that have been ingested by antigen-presenting cells and display them to the immune system. Peptide loading occurs within the antigen-presenting cell and is facilitated by HLA-DM. HLA-DM stabilizes the open conformation of the MHCII binding groove when no peptide is bound. While a structure of the MHCII/HLA-DM complex exists, the mechanism of stabilization is still largely unknown. Here, we applied customized Natural Move Monte Carlo to investigate this interaction. We found a possible long-range mechanism that implicates the configuration of the membrane-proximal globular domains in stabilizing the open state of the empty MHCII binding groove.

Indexed as

Monte Carlo MethodBinding SitesHistocompatibility Antigens Class IIHLA-D AntigensModels, MolecularProtein DomainsProtein StabilityHistocompatibility Antigens Class IIHLA-D AntigensHLA-DM antigens

Identifiers

PMID31070900
PMCPMC7007188
OpenAlexW2943962396

What OpenQuestion holds

Textmetadata
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.