A brief history of bioinformatics

J Gauthier, AT Vincent, SJ Charette… - Briefings in …, 2019 - academic.oup.com
It is easy for today's students and researchers to believe that modern bioinformatics
emerged recently to assist next-generation sequencing data analysis. However, the very …

Generic GPCR residue numbers–aligning topology maps while minding the gaps

V Isberg, C De Graaf, A Bortolato, V Cherezov… - Trends in …, 2015 - cell.com
Generic residue numbers facilitate comparisons of, for example, mutational effects, ligand
interactions, and structural motifs. The numbering scheme by Ballesteros and Weinstein for …

Structural conservation of antibiotic interaction with ribosomes

H Paternoga, C Crowe-McAuliffe, LV Bock… - Nature structural & …, 2023 - nature.com
The ribosome is a major target for clinically used antibiotics, but multidrug resistant
pathogenic bacteria are making our current arsenal of antimicrobials obsolete. Here we …

Robust atomistic modeling of materials, organometallic, and biochemical systems

S Spicher, S Grimme - Angewandte Chemie International …, 2020 - Wiley Online Library
Modern chemistry seems to be unlimited in molecular size and elemental composition. Metal‐
organic frameworks or biological macromolecules involve complex architectures and a large …

[HTML][HTML] Comparison of silver and molybdenum microfocus X-ray sources for single-crystal structure determination

L Krause, R Herbst-Irmer, GM Sheldrick… - Journal of applied …, 2015 - scripts.iucr.org
The quality of diffraction data obtained using silver and molybdenum microsources has been
compared for six model compounds with a wide range of absorption factors. The …

Polyclonal Secondary FGFR2 Mutations Drive Acquired Resistance to FGFR Inhibition in Patients with FGFR2 Fusion–Positive Cholangiocarcinoma

L Goyal, SK Saha, LY Liu, G Siravegna, I Leshchiner… - Cancer discovery, 2017 - AACR
Genetic alterations in the fibroblast growth factor receptor (FGFR) pathway are promising
therapeutic targets in many cancers, including intrahepatic cholangiocarcinoma (ICC). The …

Alchemical binding free energy calculations in AMBER20: Advances and best practices for drug discovery

TS Lee, BK Allen, TJ Giese, Z Guo, P Li… - Journal of Chemical …, 2020 - ACS Publications
Predicting protein–ligand binding affinities and the associated thermodynamics of
biomolecular recognition is a primary objective of structure-based drug design. Alchemical …

Improved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of pKa Values

CR Søndergaard, MHM Olsson… - Journal of chemical …, 2011 - ACS Publications
The new empirical rules for protein p K a predictions implemented in the PROPKA3. 0
software package (Olsson et al. J. Chem. Theory Comput. 2010, 7, 525–537) have been …

Revealing noncovalent interactions

ER Johnson, S Keinan, P Mori-Sánchez… - Journal of the …, 2010 - ACS Publications
Molecular structure does not easily identify the intricate noncovalent interactions that govern
many areas of biology and chemistry, including design of new materials and drugs. We …

Natural products for glycaemic control: Polyphenols as inhibitors of alpha-amylase

L Sun, FJ Warren, MJ Gidley - Trends in Food Science & Technology, 2019 - Elsevier
Background α-Amylase plays an important role in starch digestion, the main source of
exogenous glucose in the human diet. Retarding glucose absorption through delaying …