Evidence map›Paper›PMID 35291777›Full record

ArticleThe Journal of chemical physics2022

Origin of thiocyanate spectral shifts in water and organic solvents.

Ruoqi Zhao, Joseph C Shirley, Euihyun Lee, Adam Grofe, Hui Li, Carlos R Baiz, Jiali Gao

Open access · greenAbstract read
In one paragraph

Article in The Journal of chemical physics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
1.8field-weighted citation impact, top 16% 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

2 citing papers in PubMed, 13 citations in OpenAlex.

  1. Article
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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 1 institution in 2 countries.

Ruoqi ZhaoInstitute of Theoretical Chemistry, Jilin University, Changchun, Jilin Province 130023, China.
Joseph C ShirleyDepartment of Chemistry, University of Texas, Austin, Texas 78712, USA.ORCID s0000000216977620
Euihyun LeeDepartment of Chemistry, University of Texas, Austin, Texas 78712, USA.ORCID s0000000315832048
Adam GrofeInstitute of Theoretical Chemistry, Jilin University, Changchun, Jilin Province 130023, China.ORCID s0000000285314396
Hui LiInstitute of Theoretical Chemistry, Jilin University, Changchun, Jilin Province 130023, China.ORCID s0000000226892241
Carlos R BaizDepartment of Chemistry, University of Texas, Austin, Texas 78712, USA.ORCID s0000000306998468
Jiali GaoInstitute of Systems and Physical Biology, Shenzhen Bay Laboratory, Shenzhen 518055, China.ORCID s0000000301067154
University of Minnesota · US

Funding

Protein structure and dynamics in ultra-heterogeneous environments-RenewalR35GM133359 · NIGMS · UNIVERSITY OF TEXAS AT AUSTIN · PI Carlos Raul Baiz · 2019 to 2026
$1.8M
NIGMS NIH HHS R35 GM133359
6 · The paper itself

Abstract

Vibrational spectroscopy is a useful technique for probing chemical environments. The development of models that can reproduce the spectra of nitriles and azides is valuable because these probes are uniquely suited for investigating complex systems. Empirical vibrational spectroscopic maps are commonly employed to obtain the instantaneous vibrational frequencies during molecular dynamics simulations but often fail to adequately describe the behavior of these probes, especially in its transferability to a diverse range of environments. In this paper, we demonstrate several reasons for the difficulty in constructing a general-purpose vibrational map for methyl thiocyanate (MeSCN), a model for cyanylated biological probes. In particular, we found that electrostatics alone are not a sufficient metric to categorize the environments of different solvents, and the dominant features in intermolecular interactions in the energy landscape vary from solvent to solvent. Consequently, common vibrational mapping schemes do not cover all essential interaction terms adequately, especially in the treatment of van der Waals interactions. Quantum vibrational perturbation (QVP) theory, along with a combined quantum mechanical and molecular mechanical potential for solute-solvent interactions, is an alternative and efficient modeling technique, which is compared in this paper, to yield spectroscopic results in good agreement with experimental FTIR. QVP has been used to analyze the computational data, revealing the shortcomings of the vibrational maps for MeSCN in different solvents. The results indicate that insights from QVP analysis can be used to enhance the transferability of vibrational maps in future studies.

Identifiers

PMID35291777
PMCPMC8923707
OpenAlexW4213004487

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.