Evidence map›Paper›PMID 39735926›Full record

ArticleJACS Au2024

Hydrogen Bond Blueshifts in Nitrile Vibrational Spectra Are Dictated by Hydrogen Bond Geometry and Dynamics.

Jacob M Kirsh, Jacek Kozuch

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Article in JACS Au, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

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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

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3 · Its place in the literature

Who cites it

5 citing papers in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

2 authors.

Jacob M KirshDepartment of Chemistry, Stanford University, Stanford, California 94305-5012, United States.ORCID https://orcid.org/0000-0002-1444-2913
Jacek KozuchFreie Universität Berlin, Physics Department, Experimental Molecular Biophysics, Arnimallee 14, 14195 Berlin, Germany.ORCID https://orcid.org/0000-0002-2115-4899

Funding

Biophysical Studies of Macromolecules and Molecular AssembliesR35GM118044 · NIGMS · STANFORD UNIVERSITY · PI STEVEN G. BOXER · 2016 to 2026
$7.2M
NIGMS NIH HHS R35 GM118044
6 · The paper itself

Abstract

Vibrational Stark effect (VSE) spectroscopy has become one of the most important experimental approaches to determine the strength of noncovalent, electrostatic interactions in chemistry and biology and to quantify their influence on structure and reactivity. Nitriles (C≡N) have been widely used as VSE probes, but their application has been complicated by an anomalous hydrogen bond (HB) blueshift which is not encompassed within the VSE framework. We present an empirical model describing the anomalous HB blueshift in terms of H-bonding geometry, i.e., as a function of HB distance and angle with respect to the C≡N group. This model is obtained by comparing vibrational observables from density functional theory and electrostatics from the polarizable AMOEBA force field, and it provides a physical explanation for the HB blueshift in terms of underlying multipolar and Pauli repulsion contributions. Additionally, we compare predicted blueshifts with experimental results and find our model provides a useful, direct framework to analyze HB geometry for rigid HBs, such as within proteins or chemical frameworks. In contrast, nitriles in highly dynamic H-bonding environments like protic solvents are no longer a function solely of geometry; this is a consequence of motional narrowing, which we demonstrate by simulating IR spectra. Overall, when HB geometry and dynamics are accounted for, an excellent correlation is found between observed and predicted HB blueshifts. This correlation includes different types of nitriles and HB donors, suggesting that our model is general and can aid in understanding HB blueshifts wherever nitriles can be implemented.

Identifiers

PMID39735926
PMCPMC11672138

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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.