Evidence map›Paper›PMID 39183910›Full record

ArticleChemical science2024

A physics-aware neural network for protein-ligand interactions with quantum chemical accuracy.

Zachary L Glick, Derek P Metcalf, Caroline S Glick, Steven A Spronk, Alexios Koutsoukas, Daniel L Cheney, C David Sherrill

Abstract read
In one paragraph

Article in Chemical science, 2024. 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
–field-weighted citation impact
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.

  1. Article
  2. Review
  3. Article
  4. Directional ΔJournal of chemical information and modeling · 2024
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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.

Zachary L GlickSchool of Chemistry and Biochemistry, School of Computational Science and Engineering, Georgia Institute of Technology Atlanta Georgia 30332-0400 USA sherrill@gatech.edu.ORCID https://orcid.org/0000-0003-0900-2849
Derek P MetcalfSchool of Chemistry and Biochemistry, School of Computational Science and Engineering, Georgia Institute of Technology Atlanta Georgia 30332-0400 USA sherrill@gatech.edu.ORCID https://orcid.org/0000-0003-2395-3229
Caroline S GlickSchool of Chemistry and Biochemistry, School of Computational Science and Engineering, Georgia Institute of Technology Atlanta Georgia 30332-0400 USA sherrill@gatech.edu.ORCID https://orcid.org/0000-0003-1759-2594
Steven A SpronkMolecular Structure and Design, Bristol Myers Squibb Company P.O. Box 5400 Princeton New Jersey 08543 USA.ORCID https://orcid.org/0000-0002-2851-2572
Alexios KoutsoukasMolecular Structure and Design, Bristol Myers Squibb Company P.O. Box 5400 Princeton New Jersey 08543 USA.
Daniel L CheneyMolecular Structure and Design, Bristol Myers Squibb Company P.O. Box 5400 Princeton New Jersey 08543 USA.ORCID https://orcid.org/0009-0008-6994-7688
C David SherrillSchool of Chemistry and Biochemistry, School of Computational Science and Engineering, Georgia Institute of Technology Atlanta Georgia 30332-0400 USA sherrill@gatech.edu.ORCID https://orcid.org/0000-0002-5570-7666

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Quantifying intermolecular interactions with quantum chemistry (QC) is useful for many chemical problems, including understanding the nature of protein-ligand interactions. Unfortunately, QC computations on protein-ligand systems are too computationally expensive for most use cases. The flourishing field of machine-learned (ML) potentials is a promising solution, but it is limited by an inability to easily capture long range, non-local interactions. In this work we develop an atomic-pairwise neural network (AP-Net) specialized for modeling intermolecular interactions. This model benefits from a number of physical constraints, including a two-component equivariant message passing neural network architecture that predicts interaction energies

Identifiers

PMID39183910
PMCPMC11339967

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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.