From integrative structural biology to cell biology

A Sali - Journal of Biological Chemistry, 2021 - ASBMB
Integrative modeling is an increasingly important tool in structural biology, providing
structures by combining data from varied experimental methods and prior information. As a …

From systems to structure—using genetic data to model protein structures

H Braberg, I Echeverria, RM Kaake, A Sali… - Nature Reviews …, 2022 - nature.com
Understanding the effects of genetic variation is a fundamental problem in biology that
requires methods to analyse both physical and functional consequences of sequence …

Context-defined cancer co-dependency mapping identifies a functional interplay between PRC2 and MLL-MEN1 complex in lymphoma

X Chen, Y Li, F Zhu, X Xu, B Estrella, MA Pazos… - Nature …, 2023 - nature.com
Interplay between chromatin-associated complexes and modifications critically contribute to
the partitioning of epigenome into stable and functionally distinct domains. Yet there is a lack …

Mapping the multiscale structure of biological systems

LV Schaffer, T Ideker - Cell systems, 2021 - cell.com
Biological systems are by nature multiscale, consisting of subsystems that factor into
progressively smaller units in a deeply hierarchical structure. At any level of the hierarchy …

[HTML][HTML] New opportunities in integrative structural modeling

DS Ziemianowicz, J Kosinski - Current Opinion in Structural Biology, 2022 - Elsevier
Integrative structural modeling enables structure determination of macromolecules and their
complexes by integrating data from multiple sources. It has been successfully used to …

Epigenetic inhibition assisted chemotherapeutic treatment of lung cancer based on artificial exosomes

Y Lin, S Li, Z Xiao, S Chen, L Yang, Q Peng, H Li… - Pharmacological …, 2021 - Elsevier
We adopted a novel strategy by combining histone deacetylase (HDAC) inhibitors with
traditional chemotherapeutics to treat solid tumors. However, chemotherapeutics often have …

Systems-level effects of allosteric perturbations to a model molecular switch

T Perica, CJP Mathy, J Xu, GΜ Jang, Y Zhang, R Kaake… - Nature, 2021 - nature.com
Molecular switch proteins whose cycling between states is controlled by opposing
regulators, are central to biological signal transduction. As switch proteins function within …

Bayesian methods in integrative structure modeling

M Habeck - Biological Chemistry, 2023 - degruyter.com
There is a growing interest in characterizing the structure and dynamics of large
biomolecular assemblies and their interactions within the cellular environment. A diverse …

Large protein complex interfaces have evolved to promote cotranslational assembly

M Badonyi, JA Marsh - Elife, 2022 - elifesciences.org
Assembly pathways of protein complexes should be precise and efficient to minimise
misfolding and unwanted interactions with other proteins in the cell. One way to achieve this …

[HTML][HTML] Biochemistry and genetics are coming together to improve our understanding of genotype to phenotype relationships

J Notbohm, T Perica - Current Opinion in Structural Biology, 2024 - Elsevier
Since genome sequencing became accessible, determining how specific differences in
genotypes lead to complex phenotypes such as disease has become one of the key goals in …