The molecular basis for cellular function of intrinsically disordered protein regions
AS Holehouse, BB Kragelund - Nature Reviews Molecular Cell Biology, 2024 - nature.com
Intrinsically disordered protein regions exist in a collection of dynamic interconverting
conformations that lack a stable 3D structure. These regions are structurally heterogeneous …
conformations that lack a stable 3D structure. These regions are structurally heterogeneous …
[HTML][HTML] Advances in protein structure prediction and design
The prediction of protein three-dimensional structure from amino acid sequence has been a
grand challenge problem in computational biophysics for decades, owing to its intrinsic …
grand challenge problem in computational biophysics for decades, owing to its intrinsic …
[HTML][HTML] Considerations and challenges in studying liquid-liquid phase separation and biomolecular condensates
Evidence is now mounting that liquid-liquid phase separation (LLPS) underlies the formation
of membraneless compartments in cells. This realization has motivated major efforts to …
of membraneless compartments in cells. This realization has motivated major efforts to …
Mutation effects predicted from sequence co-variation
Many high-throughput experimental technologies have been developed to assess the
effects of large numbers of mutations (variation) on phenotypes. However, designing …
effects of large numbers of mutations (variation) on phenotypes. However, designing …
Systematic identification of conditionally folded intrinsically disordered regions by AlphaFold2
The AlphaFold Protein Structure Database contains predicted structures for millions of
proteins. For the majority of human proteins that contain intrinsically disordered regions …
proteins. For the majority of human proteins that contain intrinsically disordered regions …
Deep generative models of genetic variation capture the effects of mutations
The functions of proteins and RNAs are defined by the collective interactions of many
residues, and yet most statistical models of biological sequences consider sites nearly …
residues, and yet most statistical models of biological sequences consider sites nearly …
A systematic p53 mutation library links differential functional impact to cancer mutation pattern and evolutionary conservation
E Kotler, O Shani, G Goldfeld, M Lotan-Pompan… - Molecular cell, 2018 - cell.com
The TP53 gene is frequently mutated in human cancer. Research has focused
predominantly on six major" hotspot" codons, which account for only∼ 30% of cancer …
predominantly on six major" hotspot" codons, which account for only∼ 30% of cancer …
Sixty-five years of the long march in protein secondary structure prediction: the final stretch?
Protein secondary structure prediction began in 1951 when Pauling and Corey predicted
helical and sheet conformations for protein polypeptide backbone even before the first …
helical and sheet conformations for protein polypeptide backbone even before the first …
The EVcouplings Python framework for coevolutionary sequence analysis
Coevolutionary sequence analysis has become a commonly used technique for de novo
prediction of the structure and function of proteins, RNA, and protein complexes. We present …
prediction of the structure and function of proteins, RNA, and protein complexes. We present …
Energy landscapes of protein aggregation and conformation switching in intrinsically disordered proteins
B Strodel - Journal of molecular biology, 2021 - Elsevier
The protein folding problem was apparently solved recently by the advent of a deep learning
method for protein structure prediction called AlphaFold. However, this program is not able …
method for protein structure prediction called AlphaFold. However, this program is not able …