Protein binding pocket dynamics

A Stank, DB Kokh, JC Fuller… - Accounts of chemical …, 2016 - ACS Publications
Conspectus The dynamics of protein binding pockets are crucial for their interaction
specificity. Structural flexibility allows proteins to adapt to their individual molecular binding …

Ten things you should know about protein kinases: IUPHAR R eview 14

D Fabbro, SW Cowan‐Jacob… - British journal of …, 2015 - Wiley Online Library
Many human malignancies are associated with aberrant regulation of protein or lipid
kinases due to mutations, chromosomal rearrangements and/or gene amplification. Protein …

DeepDTAF: a deep learning method to predict protein–ligand binding affinity

K Wang, R Zhou, Y Li, M Li - Briefings in Bioinformatics, 2021 - academic.oup.com
Biomolecular recognition between ligand and protein plays an essential role in drug
discovery and development. However, it is extremely time and resource consuming to …

Mechanisms and functions of p38 MAPK signalling

A Cuadrado, AR Nebreda - Biochemical journal, 2010 - portlandpress.com
The p38 MAPK (mitogen-activated protein kinase) signalling pathway allows cells to
interpret a wide range of external signals and respond appropriately by generating a …

Molecular interaction studies using microscale thermophoresis

M Jerabek-Willemsen, CJ Wienken… - Assay and drug …, 2011 - liebertpub.com
The use of infrared laser sources for creation of localized temperature fields has opened
new possibilities for basic research and drug discovery. A recently developed technology …

Glide: a new approach for rapid, accurate docking and scoring. 2. Enrichment factors in database screening

TA Halgren, RB Murphy, RA Friesner… - Journal of medicinal …, 2004 - ACS Publications
Glide's ability to identify active compounds in a database screen is characterized by
applying Glide to a diverse set of nine protein receptors. In many cases, two, or even three …

Protein conformational flexibility modulates kinetics and thermodynamics of drug binding

M Amaral, DB Kokh, J Bomke, A Wegener… - Nature …, 2017 - nature.com
Abstract Structure-based drug design has often been restricted by the rather static picture of
protein–ligand complexes presented by crystal structures, despite the widely accepted …

Mechanism of activation of the RAF-ERK signaling pathway by oncogenic mutations of B-RAF

PTC Wan, MJ Garnett, SM Roe, S Lee… - Cell, 2004 - cell.com
Over 30 mutations of the B-RAF gene associated with human cancers have been identified,
the majority of which are located within the kinase domain. Here we show that of 22 B-RAF …

Anti-hepatocellular carcinoma biomolecules: molecular targets insights

N Juaid, A Amin, A Abdalla, K Reese, Z Alamri… - International journal of …, 2021 - mdpi.com
This report explores the available curative molecules directed against hepatocellular
carcinoma (HCC). Limited efficiency as well as other drawbacks of existing molecules led to …

The selectivity of protein kinase inhibitors: a further update

J Bain, L Plater, M Elliott, N Shpiro, CJ Hastie… - Biochemical …, 2007 - portlandpress.com
The specificities of 65 compounds reported to be relatively specific inhibitors of protein
kinases have been profiled against a panel of 70–80 protein kinases. On the basis of this …