Targeting p53 pathways: mechanisms, structures, and advances in therapy
The TP53 tumor suppressor is the most frequently altered gene in human cancers, and has
been a major focus of oncology research. The p53 protein is a transcription factor that can …
been a major focus of oncology research. The p53 protein is a transcription factor that can …
AlphaFold2 and its applications in the fields of biology and medicine
Z Yang, X Zeng, Y Zhao, R Chen - Signal Transduction and Targeted …, 2023 - nature.com
Abstract AlphaFold2 (AF2) is an artificial intelligence (AI) system developed by DeepMind
that can predict three-dimensional (3D) structures of proteins from amino acid sequences …
that can predict three-dimensional (3D) structures of proteins from amino acid sequences …
The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest
Much of the complexity within cells arises from functional and regulatory interactions among
proteins. The core of these interactions is increasingly known, but novel interactions …
proteins. The core of these interactions is increasingly known, but novel interactions …
RCSB Protein Data Bank (RCSB. org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from …
Abstract The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB
PDB), founding member of the Worldwide Protein Data Bank (wwPDB), is the US data center …
PDB), founding member of the Worldwide Protein Data Bank (wwPDB), is the US data center …
Learning inverse folding from millions of predicted structures
We consider the problem of predicting a protein sequence from its backbone atom
coordinates. Machine learning approaches to this problem to date have been limited by the …
coordinates. Machine learning approaches to this problem to date have been limited by the …
Scaffolding protein functional sites using deep learning
The binding and catalytic functions of proteins are generally mediated by a small number of
functional residues held in place by the overall protein structure. Here, we describe deep …
functional residues held in place by the overall protein structure. Here, we describe deep …
AlphaFill: enriching AlphaFold models with ligands and cofactors
Artificial intelligence-based protein structure prediction approaches have had a
transformative effect on biomolecular sciences. The predicted protein models in the …
transformative effect on biomolecular sciences. The predicted protein models in the …
AI-based structure prediction empowers integrative structural analysis of human nuclear pores
INTRODUCTION The eukaryotic nucleus protects the genome and is enclosed by the two
membranes of the nuclear envelope. Nuclear pore complexes (NPCs) perforate the nuclear …
membranes of the nuclear envelope. Nuclear pore complexes (NPCs) perforate the nuclear …
Accurate prediction of protein–nucleic acid complexes using RoseTTAFoldNA
Protein–RNA and protein–DNA complexes play critical roles in biology. Despite
considerable recent advances in protein structure prediction, the prediction of the structures …
considerable recent advances in protein structure prediction, the prediction of the structures …
Benchmarking AlphaFold‐enabled molecular docking predictions for antibiotic discovery
Efficient identification of drug mechanisms of action remains a challenge. Computational
docking approaches have been widely used to predict drug binding targets; yet, such …
docking approaches have been widely used to predict drug binding targets; yet, such …