Evidence map›Paper›PMID 35420112›Full record

ArticleOrganic & biomolecular chemistry2022

Allosteric control of ACE2 peptidase domain dynamics.

Francesco Trozzi, Nischal Karki, Zilin Song, Niraj Verma, Elfi Kraka, Brian D Zoltowski, Peng Tao

Open access · greenAbstract read
In one paragraph

Article in Organic & biomolecular chemistry, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.3field-weighted citation impact, top 46% 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

4 citing papers in PubMed, 5 citations in OpenAlex.

  1. Article
  2. Article
  3. Machine learning and protein allostery.Trends in biochemical sciences · 2023
    Review
  4. 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

7 authors at 1 institution in 1 country.

Francesco TrozziDepartment of Chemistry, Center for Research Computing, Center for Drug Discovery, Design, and Delivery (CD4), Southern Methodist University, Dallas, USA. ptao@smu.edu.ORCID 0000-0001-5538-9189
Nischal KarkiDepartment of Chemistry, Center for Research Computing, Center for Drug Discovery, Design, and Delivery (CD4), Southern Methodist University, Dallas, USA. ptao@smu.edu.
Zilin SongDepartment of Chemistry, Center for Research Computing, Center for Drug Discovery, Design, and Delivery (CD4), Southern Methodist University, Dallas, USA. ptao@smu.edu.ORCID 0000-0002-3127-3971
Niraj VermaDepartment of Chemistry, Center for Research Computing, Center for Drug Discovery, Design, and Delivery (CD4), Southern Methodist University, Dallas, USA. ptao@smu.edu.ORCID 0000-0003-4762-944X
Elfi KrakaDepartment of Chemistry, Center for Research Computing, Center for Drug Discovery, Design, and Delivery (CD4), Southern Methodist University, Dallas, USA. ptao@smu.edu.
Brian D ZoltowskiDepartment of Chemistry, Center for Research Computing, Center for Drug Discovery, Design, and Delivery (CD4), Southern Methodist University, Dallas, USA. ptao@smu.edu.
Peng TaoDepartment of Chemistry, Center for Research Computing, Center for Drug Discovery, Design, and Delivery (CD4), Southern Methodist University, Dallas, USA. ptao@smu.edu.ORCID 0000-0002-2488-0239
Southern Methodist University · US

Funding

Structural Flexibility Mediates Circadian Adaptation in Diverse OrganismsR15GM109282 · NIGMS · SOUTHERN METHODIST UNIVERSITY · PI ZOLTOWSKI, BRIAN DAVID · 2014 to 2021
$1.2M
Probing Hidden Conformational Space and Dynamical States of Circadian Clock Proteins through Rigid Residue Scan and Machine LearningR15GM122013 · NIGMS · SOUTHERN METHODIST UNIVERSITY · PI TAO, PENG · 2018 to 2023
$800k
NIGMS NIH HHS R15 GM109282NIGMS NIH HHS R15 GM122013
6 · The paper itself

Abstract

The Angiotensin Converting Enzyme 2 (ACE2) assists the regulation of blood pressure and is the main target of the coronaviruses responsible for SARS and COVID19. The catalytic function of ACE2 relies on the opening and closing motion of its peptidase domain (PD). In this study, we investigated the possibility of allosterically controlling the ACE2 PD functional dynamics. After confirming that ACE2 PD binding site opening-closing motion is dominant in characterizing its conformational landscape, we observed that few mutations in the viral receptor binding domain fragments were able to impart different effects on the binding site opening of ACE2 PD. This showed that binding to the solvent exposed area of ACE2 PD can effectively alter the conformational profile of the protein, and thus likely its catalytic function. Using a targeted machine learning model and relative entropy-based statistical analysis, we proposed the mechanism for the allosteric perturbation that regulates the ACE2 PD binding site dynamics at atomistic level. The key residues and the source of the allosteric regulation of ACE PD dynamics are also presented.

Indexed as

Angiotensin-Converting Enzyme 2COVID-19Binding SitesHumansMolecular Dynamics SimulationProtein BindingProtein DomainsSARS-CoV-2Spike Glycoprotein, CoronavirusAngiotensin-Converting Enzyme 2Spike Glycoprotein, Coronavirusspike protein, SARS-CoV-2

Identifiers

PMID35420112
PMCPMC9205182
OpenAlexW4224035722

What OpenQuestion holds

Textmetadata
LicenceTDM
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.