The local vibrational mode theory and its place in the vibrational spectroscopy arena
E Kraka, M Quintano, HW La Force… - The Journal of …, 2022 - ACS Publications
This Feature Article starts highlighting some recent experimental and theoretical advances
in the field of IR and Raman spectroscopy, giving a taste of the breadth and dynamics of this …
in the field of IR and Raman spectroscopy, giving a taste of the breadth and dynamics of this …
[HTML][HTML] Quantum mechanical assessment of protein–ligand hydrogen bond strength patterns: insights from semiempirical tight-binding and local vibrational mode …
Hydrogen bonds (HB) s are the most abundant motifs in biological systems. They play a key
role in determining protein–ligand binding affinity and selectivity. We designed two …
role in determining protein–ligand binding affinity and selectivity. We designed two …
Noncovalent π Interactions in Mutated Aquomet-Myoglobin Proteins: A QM/MM and Local Vibrational Mode Study
JJ Antonio, E Kraka - Biochemistry, 2023 - ACS Publications
Protein dynamics and function is strongly connected to the energy flow taking place.
Myoglobin (Mb) and its mutations are ideal systems to study the process of vibrational …
Myoglobin (Mb) and its mutations are ideal systems to study the process of vibrational …
Automatic generation of local vibrational mode parameters: from small to large molecules and QM/MM systems
LModeAGen, a new protocol for the automatic determination of a nonredundant, complete
set of local vibrational modes is reported, which is based on chemical graph concepts …
set of local vibrational modes is reported, which is based on chemical graph concepts …
Decoding chemical bonds: assessment of the basis set effect on overlap electron density descriptors and topological properties in comparison to QTAIM
CV Santos Jr, SA Monteiro, ASC Soares… - The Journal of …, 2023 - ACS Publications
Quantum chemical bonding descriptors based on the total and overlap density can provide
valuable information about chemical interactions in different systems. However, these …
valuable information about chemical interactions in different systems. However, these …
Hydrogen Sulfide Ligation in Hemoglobin I of Lucina pectinata─A QM/MM and Local Mode Study
M Freindorf, J Antonio, E Kraka - The Journal of Physical …, 2023 - ACS Publications
In this study, we investigated the interaction between the H2S ligand and the heme pocket of
hemoglobin I (HbI) of Lucina pectinata for the wild-type protein; three known mutations …
hemoglobin I (HbI) of Lucina pectinata for the wild-type protein; three known mutations …
Chemical bonding in Uranium‐based materials: A local vibrational mode case study of CsUOCl and UCl crystals
Abstract The Local Vibrational Mode Analysis, initially applied to diverse molecular systems,
was extended to periodic systems in 2019. This work introduces an enhanced version of the …
was extended to periodic systems in 2019. This work introduces an enhanced version of the …
Iron–histidine bonding in bishistidyl hemoproteins–A local vibrational mode study
M Freindorf, JJ Antonio, E Kraka - Journal of Computational …, 2024 - Wiley Online Library
We investigated the intrinsic strength of distal and proximal FeN bonds for both ferric and
ferrous oxidation states of bishistidyl hemoproteins from bacteria, animals, human, and …
ferrous oxidation states of bishistidyl hemoproteins from bacteria, animals, human, and …
[HTML][HTML] Exploring Jahn-Teller distortions: a local vibrational mode perspective
M Quintano, RT Moura Jr, E Kraka - Journal of Molecular Modeling, 2024 - Springer
The characterization of normal mode (CNM) procedure coupled with an adiabatic
connection scheme (ACS) between local and normal vibrational modes, both being a part of …
connection scheme (ACS) between local and normal vibrational modes, both being a part of …
Local vibrational mode theory meets graph theory: Complete and non-redundant local mode sets
M Quintano, RT Moura Jr, E Kraka - Chemical Physics Letters, 2024 - Elsevier
Abstract This Frontiers Article introduces a unique perspective on the well-established
concept of completeness in a chemically meaningful set of non-redundant local vibrational …
concept of completeness in a chemically meaningful set of non-redundant local vibrational …