Research

Fragment dissolved molecular dynamics

An efficient method to locate binding sites : Fragment Dissolved Molecular Dynamics (fdMD) You can check more information at https://pubs.rsc.org/en/content/articlelanding/2021/CP/D0CP05471B#!divAbstract You can download the software from here Authors: Jaime Rubio, […]

BDiffusionCrowd

Brownian dynamics (BD) simulation program to study diffusion in crwoded media using the Chain Entanglement Softened Potential (CESP) model. The CESP model uses a shoulder-shaped potential that allows goes beyond […]

Software development

Here you will find a list of software developed or collaborated by IQTCUB members. – Biopolymer Diffusion in Crowded Media – Combinatorial-K-means-clustering – DFT exchange-correlation functionals, aimed at maximizing the […]

Carles Curutchet has been awarded an EU Marie Curie INT

Carles Curutchet, full professor of the IQTC, and Xavier Barril, ICREA research professor of the IBUB, have been awarded an EU Marie Curie Innovative Training Network. The ALLOD ITN (Allostery in Drug Discovery), coordinated […]

CANDYBOTS: A New Generation of 3D‐Printed Sugar‐Based Transient Small‐Scale Robots

In a recent study published in Advanced Materials, Dr Josep Puigmartí (IQTC member) in collaboration with Dr Salvador Pané Vidal (IQTC external collaborator) and Dr Xiang-Zhong Chen, have developed sugar-based microrobots for […]

Adjusting exchange and correlation for a better description of transition metals

In this work, Lorena Vega and Dr. Francesc Viñes, from the IQTCUB, developed two new Density Functional Theory exchange-correlation functionals, VV and VVsol, aimed at better describing bulk and surface […]

Effect of set up protocols on the accuracy of alchemical free energy calculation over a set of ACK1 inhibitors

J. M. Granadino-Roldán, A. S. J. S. Mey, J. J. Pérez González, S. Bosisio, J. Rubio- Martinez, J. Michel.PLoS ONE 14 (2019) e0213217. Snapshot taken after 2 ns of MD showing the […]

Effect of charge regulation and conformational equilibria in the stretching properties of weak polyelectrolytes

P. M. Blanco, S. Madurga, F. Mas, J. L. Garcés.Macromolecules 52 (2019) 8017-8031. Scheem of a weak polyelectrolyte model under the influence of pH, ionic strength and external force. Monomers are represented […]

Deciphering the enzymatic mechanism of sugar ring contraction in UDP-apiose biosynthesis

S. Savino, A. J. E. Borg, A. Dennig, M. Pfeiffer, F. de Giorgi, H. Weber, K. D. Dubey, C. Rovira, A. Mattevi, B. Nidetzky.Nat. Catal., 2 (2019) 1115. Representation of the logD […]

Development of a structure-bsed pH-dependent lipophilicity scale of amino acids from continuum solvation calculations

W. J. Zamora, J. M. Campanera, F. J. LuqueJ. Phys. Chem. Letters., 10 (2019) 883. Representation of the logD of selected amino acids in the two hydrophobicity scales. We report a versatile […]