Coarse-grained protein models and their applications
The traditional computational modeling of protein structure, dynamics, and interactions
remains difficult for many protein systems. It is mostly due to the size of protein …
remains difficult for many protein systems. It is mostly due to the size of protein …
Liquid–liquid phase separation by intrinsically disordered protein regions of viruses: Roles in viral life cycle and control of virus–host interactions
Intrinsically disordered proteins (IDPs) are unable to adopt a unique 3D structure under
physiological conditions and thus exist as highly dynamic conformational ensembles. IDPs …
physiological conditions and thus exist as highly dynamic conformational ensembles. IDPs …
flDPnn: Accurate intrinsic disorder prediction with putative propensities of disorder functions
G Hu, A Katuwawala, K Wang, Z Wu… - Nature …, 2021 - nature.com
Identification of intrinsic disorder in proteins relies in large part on computational predictors,
which demands that their accuracy should be high. Since intrinsic disorder carries out a …
which demands that their accuracy should be high. Since intrinsic disorder carries out a …
[HTML][HTML] Transcription factors activate genes through the phase-separation capacity of their activation domains
Gene expression is controlled by transcription factors (TFs) that consist of DNA-binding
domains (DBDs) and activation domains (ADs). The DBDs have been well characterized …
domains (DBDs) and activation domains (ADs). The DBDs have been well characterized …
Extreme disorder in an ultrahigh-affinity protein complex
Molecular communication in biology is mediated by protein interactions. According to the
current paradigm, the specificity and affinity required for these interactions are encoded in …
current paradigm, the specificity and affinity required for these interactions are encoded in …
Intrinsically disordered regions direct transcription factor in vivo binding specificity
Transcription factors (TFs) that bind common DNA motifs in vitro occupy distinct sets of
promoters in vivo, raising the question of how binding specificity is achieved. TFs are …
promoters in vivo, raising the question of how binding specificity is achieved. TFs are …
Rapid prediction and analysis of protein intrinsic disorder
GW Dayhoff, VN Uversky - Protein Science, 2022 - Wiley Online Library
Protein intrinsic disorder is found in all kingdoms of life and is known to underpin numerous
physiological and pathological processes. Computational methods play an important role in …
physiological and pathological processes. Computational methods play an important role in …
Protein structure and function prediction using I‐TASSER
I‐TASSER is a hierarchical protocol for automated protein structure prediction and structure‐
based function annotation. Starting from the amino acid sequence of target proteins, I …
based function annotation. Starting from the amino acid sequence of target proteins, I …
Alpha-synuclein aggregation pathway in Parkinson's disease: current status and novel therapeutic approaches
M Vidović, MG Rikalovic - Cells, 2022 - mdpi.com
Following Alzheimer's, Parkinson's disease (PD) is the second-most common
neurodegenerative disorder, sharing an unclear pathophysiology, a multifactorial profile …
neurodegenerative disorder, sharing an unclear pathophysiology, a multifactorial profile …
Sequence heuristics to encode phase behaviour in intrinsically disordered protein polymers
FG Quiroz, A Chilkoti - Nature materials, 2015 - nature.com
Proteins and synthetic polymers that undergo aqueous phase transitions mediate self-
assembly in nature and in man-made material systems. Yet little is known about how the …
assembly in nature and in man-made material systems. Yet little is known about how the …