A comprehensive analysis of anion–quadrupole interactions in protein structures

S Chakravarty, AR Ung, B Moore, J Shore… - Biochemistry, 2018 - ACS Publications
The edgewise interactions of anions with phenylalanine (Phe) aromatic rings in proteins,
known as anion–quadrupole interactions, have been well studied. However, the anion …

Electrostatics‐defying interaction between arginine termini as a thermodynamic driving force in protein–protein interaction

D Pednekar, A Tendulkar… - … : Structure, Function, and …, 2009 - Wiley Online Library
Apparent electrostatics‐defying clustering of arginines attributed as screening effect of
solvent is in this study examined as a possible thermodynamic driving force in protein …

A preference for edgewise interactions between aromatic rings and carboxylate anions: the biological relevance of anion− quadrupole interactions

MR Jackson, R Beahm, S Duvvuru… - The Journal of …, 2007 - ACS Publications
Noncovalent interactions are quite important in biological structure− function relationships.
To study the pairwise interaction of aromatic amino acids (phenylalanine, tyrosine …

Highly Dynamic Anion–Quadrupole Networks in Proteins

K Kapoor, MR Duff, A Upadhyay, JC Bucci… - Biochemistry, 2016 - ACS Publications
The dynamics of anion–quadrupole (or anion− π) interactions formed between negatively
charged (Asp/Glu) and aromatic (Phe) side chains are for the first time computationally …

Structural and energetic study of cation–π–cation interactions in proteins

S Pinheiro, I Soteras, JL Gelpí, F Dehez… - Physical Chemistry …, 2017 - pubs.rsc.org
Cation–π interactions of aromatic rings and positively charged groups are among the most
important interactions in structural biology. The role and energetic characteristics of these …

AQcalc: A web server that identifies weak molecular interactions in protein structures

M Afshinpour, LA Smith, S Chakravarty - Protein Science, 2023 - Wiley Online Library
Weak molecular interactions play an important role in protein structure and function.
Computational tools that identify weak molecular interactions are, therefore, valuable for the …

Cation–π interactions in protein–ligand binding: theory and data-mining reveal different roles for lysine and arginine

K Kumar, SM Woo, T Siu, WA Cortopassi, F Duarte… - Chemical …, 2018 - pubs.rsc.org
We have studied the cation–π interactions of neutral aromatic ligands with the cationic
amino acid residues arginine, histidine and lysine using ab initio calculations, symmetry …

Cation–π interactions in protein–protein interfaces

PB Crowley, A Golovin - Proteins: Structure, Function, and …, 2005 - Wiley Online Library
Arginine is an abundant residue in protein–protein interfaces. The importance of this residue
relates to the versatility of its side chain in intermolecular interactions. Different classes of …

Contribution of cation-π interactions to the stability of protein-DNA complexes

R Wintjens, J Liévin, M Rooman, E Buisine - Journal of molecular biology, 2000 - Elsevier
Cation-π interactions between an aromatic ring and a positive charge located above it have
proven to be important in protein structures and biomolecule associations. Here, the role of …

A survey of aspartate− phenylalanine and glutamate− phenylalanine interactions in the protein data bank: Searching for anion− π pairs

V Philip, J Harris, R Adams, D Nguyen, J Spiers… - Biochemistry, 2011 - ACS Publications
Protein structures are stabilized using noncovalent interactions. In addition to the traditional
noncovalent interactions, newer types of interactions are thought to be present in proteins …