Revolutionizing peptide‐based drug discovery: Advances in the post‐AlphaFold era
Peptide‐based drugs offer high specificity, potency, and selectivity. However, their inherent
flexibility and differences in conformational preferences between their free and bound states …
flexibility and differences in conformational preferences between their free and bound states …
[HTML][HTML] Revolutionizing medicinal chemistry: the application of artificial intelligence (AI) in early drug discovery
Artificial intelligence (AI) has permeated various sectors, including the pharmaceutical
industry and research, where it has been utilized to efficiently identify new chemical entities …
industry and research, where it has been utilized to efficiently identify new chemical entities …
[HTML][HTML] Highly accurate protein structure prediction for the human proteome
Protein structures can provide invaluable information, both for reasoning about biological
processes and for enabling interventions such as structure-based drug development or …
processes and for enabling interventions such as structure-based drug development or …
Molecular dynamics in the endgame of protein structure prediction
MR Lee, J Tsai, D Baker, PA Kollman - Journal of molecular biology, 2001 - Elsevier
In order adequately to sample conformational space, methods for protein structure prediction
make necessary simplifications that also prevent them from being as accurate as desired …
make necessary simplifications that also prevent them from being as accurate as desired …
[HTML][HTML] New avenues in artificial-intelligence-assisted drug discovery
C Cerchia, A Lavecchia - Drug Discovery Today, 2023 - Elsevier
Over the past decade, the amount of biomedical data available has grown at unprecedented
rates. Increased automation technology and larger data volumes have encouraged the use …
rates. Increased automation technology and larger data volumes have encouraged the use …
[HTML][HTML] The case for post-predictional modifications in the AlphaFold Protein Structure Database
To the editor—AlphaFold2 has arrived to change workflows in structural biology, for good.
However, the algorithm does not account for essential modifications that affect protein …
However, the algorithm does not account for essential modifications that affect protein …
Homology modeling in drug discovery: current trends and applications
CN Cavasotto, SS Phatak - Drug discovery today, 2009 - Elsevier
As structural genomics (SG) projects continue to deposit representative 3D structures of
proteins, homology modeling methods will play an increasing role in structure-based drug …
proteins, homology modeling methods will play an increasing role in structure-based drug …
[HTML][HTML] ASTRO-FOLD: a combinatorial and global optimization framework for ab initio prediction of three-dimensional structures of proteins from the amino acid …
JL Klepeis, CA Floudas - Biophysical journal, 2003 - cell.com
The field of computational biology has been revolutionized by recent advances in genomics.
The completion of a number of genome projects, including that of the human genome, has …
The completion of a number of genome projects, including that of the human genome, has …
[HTML][HTML] Protein structure prediction with in-cell photo-crosslinking mass spectrometry and deep learning
While AlphaFold2 can predict accurate protein structures from the primary sequence,
challenges remain for proteins that undergo conformational changes or for which few …
challenges remain for proteins that undergo conformational changes or for which few …
Coevolutionary signals across protein lineages help capture multiple protein conformations
A long-standing problem in molecular biology is the determination of a complete functional
conformational landscape of proteins. This includes not only proteins' native structures, but …
conformational landscape of proteins. This includes not only proteins' native structures, but …