Related Experiment Video
Updated: Jan 11, 2026

Sedimentation Equilibrium of a Small Oligomer-forming Membrane Protein: Effect of Histidine Protonation on Pentameric Stability
Published on: April 2, 2015
Probing binding-site preferences in a propiolic acid complex with water at 0.4 K
Arghya Chakraborty1, Stefan Henkel1, Gerhard Schwaab1
1Lehrstuhl für Physikalische Chemie II, Ruhr-Universität Bochum, 44801 Bochum, Germany. martina.havenith@rub.de.
None:
Carboxylic acid⋯water complexes serve as model systems for understanding molecular interactions that are fundamental to bio- and atmospheric chemistry. Utilizing the helium nanodroplet (HND) technique, which enables the kinetic trapping of otherwise inaccessible isomeric structures, we investigated the hydrogen bonding site preferences in a 1 : 1 complex of propiolic acid (HCC-COOH, PA) with D2O. Mass-selective infrared (IR) spectra recorded in the CO and CC stretching regions confirmed the exclusive isolation of the cis-PA conformer under single-molecule doping conditions of the helium droplets. Further complexation of PA with D2O inside the droplets yielded three distinct isomers of cis-PA⋯D2O dimer, with the dominant spectral features corresponding to two kinetically trapped structures stabilized by either a non-classical (C-H⋯OD2) or a classical (CO⋯DOD) hydrogen bond. A weak IR band corresponding to the global minimum isomer, characterized by a six-membered ring involving D2O and the COOH moiety, is also observed. The structural assignments are aided by harmonic IR spectra of the lowest-energy isomers of PA⋯D2O complexes computed at the MP2/aug-cc-pVDZ level. These structural findings demonstrate the balance of the dipole-dipole and higher-order interactions in steering aggregation dynamics in HNDs. Notably, the polar D2O (μ = 1.85 D) and PA (μ = 1.59 D) promote directional association leading to the formation of local minimum structures, which are lying >20 kJ mol-1 above that of the global minimum isomer. The calculated interconversion energy barriers for cis-PA⋯D2O isomers are in accordance with kinetic trapping inside HNDs at 0.4 K.
More Related Videos
Related Concept Videos
Ligand Binding Sites
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
Polyprotic Acids
Composition of Polyprotic Acid Solutions as a Function of pH
A graph with the alpha values is plotted against the volume of...
Titration of a Polyprotic Acid
Titration of Polyprotic Acids with a Strong Base
Basicity of Aliphatic Amines
To measure the basicity of amines, two conventions are generally used. The first defines Kb as the basicity constant for the deprotonation reaction of water by the amine, as presented in Figure 1. Conventionally, lower Kb indicates higher...

