Opportunities and obstacles for deep learning in biology and medicine
T Ching, DS Himmelstein… - Journal of the …, 2018 - royalsocietypublishing.org
Deep learning describes a class of machine learning algorithms that are capable of
combining raw inputs into layers of intermediate features. These algorithms have recently …
combining raw inputs into layers of intermediate features. These algorithms have recently …
Structure, dynamics and function of the 26S proteasome
Y Mao - Macromolecular protein complexes III: structure and …, 2021 - Springer
The 26S proteasome is the most complex ATP-dependent protease machinery, of~ 2.5 MDa
mass, ubiquitously found in all eukaryotes. It selectively degrades ubiquitin-conjugated …
mass, ubiquitously found in all eukaryotes. It selectively degrades ubiquitin-conjugated …
Structural mechanism for NEK7-licensed activation of NLRP3 inflammasome
The NLRP3 inflammasome can be activated by stimuli that include nigericin, uric acid
crystals, amyloid-β fibrils and extracellular ATP. The mitotic kinase NEK7 licenses the …
crystals, amyloid-β fibrils and extracellular ATP. The mitotic kinase NEK7 licenses the …
Cryo-EM structures and dynamics of substrate-engaged human 26S proteasome
The proteasome is an ATP-dependent, 2.5-megadalton molecular machine that is
responsible for selective protein degradation in eukaryotic cells. Here we present cryo …
responsible for selective protein degradation in eukaryotic cells. Here we present cryo …
USP14-regulated allostery of the human proteasome by time-resolved cryo-EM
S Zhang, S Zou, D Yin, L Zhao, D Finley, Z Wu, Y Mao - Nature, 2022 - nature.com
Proteasomal degradation of ubiquitylated proteins is tightly regulated at multiple levels,–. A
primary regulatory checkpoint is the removal of ubiquitin chains from substrates by the …
primary regulatory checkpoint is the removal of ubiquitin chains from substrates by the …
Structural basis for dynamic regulation of the human 26S proteasome
The proteasome is the major engine of protein degradation in all eukaryotic cells. At the
heart of this machine is a heterohexameric ring of AAA (ATPases associated with diverse …
heart of this machine is a heterohexameric ring of AAA (ATPases associated with diverse …
Emerging themes in CryoEM─ Single particle analysis image processing
Cryo-electron microscopy (CryoEM) has become a vital technique in structural biology. It is
an interdisciplinary field that takes advantage of advances in biochemistry, physics, and …
an interdisciplinary field that takes advantage of advances in biochemistry, physics, and …
Structural mechanism for nucleotide-driven remodeling of the AAA-ATPase unfoldase in the activated human 26S proteasome
The proteasome is a sophisticated ATP-dependent molecular machine responsible for
protein degradation in all known eukaryotic cells. It remains elusive how conformational …
protein degradation in all known eukaryotic cells. It remains elusive how conformational …
Determining subunit-subunit interaction from statistics of cryo-EM images: observation of nearest-neighbor coupling in a circadian clock protein complex
Biological processes are typically actuated by dynamic multi-subunit molecular complexes.
However, interactions between subunits, which govern the functions of these complexes, are …
However, interactions between subunits, which govern the functions of these complexes, are …
Cryo-EM structure of the DNA-PK holoenzyme
H Sharif, Y Li, Y Dong, L Dong… - Proceedings of the …, 2017 - National Acad Sciences
DNA-dependent protein kinase (DNA-PK) is a large protein complex central to the
nonhomologous end joining (NHEJ) DNA-repair pathway. It comprises the DNA-PK catalytic …
nonhomologous end joining (NHEJ) DNA-repair pathway. It comprises the DNA-PK catalytic …