A. Meller

The Pseudogene RPS27AP5 Reveals Novel Ubiquitin and Ribosomal Protein Variants Involved in Specialised Ribosomal Functions.

The paper identifies a functional pseudogene, RPS27AP5, that produces ubiquitin and ribosomal protein variants involved in specialized ribosomal functions and transcriptional regulation.

Single protein molecules separation, tracking and counting in ultra-thin silicon channels

This paper introduces a method for parallel single-molecule protein separation and tracking, enabling identification and quantification of proteoforms and cytokines from human serum.

Divergent Molecular Phenotypes in Point Mutations at the Same Residue in Beta-Myosin Heavy Chain Lead to Distinct Cardiomyopathies

This study shows that two point mutations at the same residue in beta-myosin heavy chain cause distinct cardiomyopathies through different molecular mechanisms.

Homologous mutations in β, embryonic, and perinatal muscle myosins have divergent effects on molecular power generation

This study compares the effects of homologous mutations in three muscle myosin isoforms, finding divergent molecular impacts that correlate with disease severity.

Discovery of a cryptic pocket in the AI-predicted structure of PPM1D phosphatase explains the binding site and potency of its allosteric inhibitors

The paper shows that using dynamic simulations with an AlphaFold structure improves the prediction of allosteric inhibitor binding to PPM1D compared to static structures.

CRISPR/Cas9-mediated knockout of the ubiquitin variant UbKEKS reveals a role in regulating nucleolar structures and composition.

This study shows that UbKEKS regulates nucleolar structure and composition by affecting lamin A accumulation, apoptotic regulator sequestration, and nucleolar morphology.

Novel subthreshold retinal laser treatment with ERG-based thermal dosimetry activates hormetic heat response in pig RPE in vivo

This paper introduces a subthreshold retinal laser treatment using ERG-based thermal dosimetry to safely activate hormetic heat response in pig RPE, showing increased heat shock protein expression and autophagy without oxidative stress or apoptosis.

Accelerating cryptic pocket discovery using AlphaFold

This study uses AlphaFold to generate structures for cryptic pockets, showing it can sample open states and aid in discovering drug targets, though some remain challenging.

Decoupling of mRNA and protein expression in aging brains reveals the age-dependent adaptation of specific gene subsets

The paper examines mRNA and protein expression changes in aging mouse brains, finding age-dependent gene subset adaptations with distinct transcriptional and translational responses.

Drug specificity and affinity are encoded in the probability of cryptic pocket opening in myosin motor domains

This paper shows that the probability of cryptic pocket opening in myosin motor domains predicts drug specificity and affinity, using molecular dynamics simulations and Markov state models.

Predicting the locations of cryptic pockets from single protein structures using the PocketMiner graph neural network

The paper introduces PocketMiner, a graph neural network that predicts cryptic pockets in proteins, identifying them accurately and rapidly, expanding the druggable proteome.

DiffNets: Self-supervised deep learning to identify the mechanistic basis for biochemical differences between protein variants

DiffNets identifies structural features predicting biochemical differences between protein variants using self-supervised learning.

SARS-CoV-2 Simulations Go Exascale to Capture Spike Opening and Reveal Cryptic Pockets Across the Proteome

The paper uses exascale simulations to study SARS-CoV-2 protein dynamics, revealing cryptic epitopes and conformational changes that inform antiviral target design.

Conformational distributions of isolated myosin motor domains encode their mechanochemical properties

The paper models conformational distributions of myosin motor domains using molecular dynamics simulations to predict mechanochemical properties better than sequence or structure alone.

Single-molecule DNA unzipping reveals asymmetric modulation of a transcription factor by its binding site sequence and context

This study uses single-molecule DNA unzipping to show how Egr-1's binding affinity and structure are modulated by its binding site sequence and flanking context, with ZF3 showing stronger effects.