Juri Rappsilber

The paper identifies and characterizes a non-canonical bacterial protein translocation-folding complex using cryo-electron tomography, proteomics, and structure prediction in Mycoplasma pneumoniae.

This study identifies SERBP1 as a regulator of ribosome interactions, showing its role in modulating factors involved in mRNA degradation, translational control, and ribosome quality control.

KlinkPPI provides a unified interface to retrieve and compare protein-protein interaction data from multiple databases without merging or consensus.

This study identifies PepA as a regulator of nhaB gene expression in Vibrio cholerae, revealing its role in Na+ homeostasis through suppressor mutations in a nhaA nqr mutant.

SILAC-Site directly measures phosphosite stoichiometries without enrichment, showing low stoichiometry for most phosphopeptides and correlating with direct detection.

RapCluster provides an interactive web platform with 11 clustering algorithms to improve transparency and reproducibility in clustering analysis.

The paper develops a psychrophilic orthogonal translation system for expanding the genetic code in E. coli, showing improved efficiency and versatility compared to mesophilic and thermophilic systems.

This paper introduces a method using high-intensity longwave UV light to rapidly perform in-cell photo-crosslinking with minimal photodamage, enabling fast analysis of biomolecular interactions.

The paper investigates the role of three chromatin-associated PP1 targeting subunits in mitotic exit and G1 re-establishment using multi-omic analyses.

The paper uses synthetic TALE proteins to identify chromatin-associated proteins on repetitive elements in Trypanosoma brucei, revealing their roles in chromosome structure and function.

The paper benchmarks proteomics accuracy using a large-scale dataset, identifying systematic errors and providing a resource for method optimization and software evaluation.

MetaXtract extracts structured metadata from Thermo Fisher raw files to enhance FAIR data practices and workflow efficiency.

The paper shows phosphorylation modulates deadenylation rates via multivalent interactions in RNA adaptors, enabling graded regulation of mRNA decay.

The paper identifies AIFM1/AK2 interaction as a gatekeeper of mitochondrial ATP synthase, showing it is NADH-dependent and linked to metabolic state, with implications for mitochondrial diseases.

This study reveals how the chromosomal passenger complex (CPC) interacts with nucleosomes to protect centromeric chromatin, showing its non-catalytic role in maintaining chromatin stability.

The paper audits error control in twelve crosslinking mass spectrometry pipelines using ground-truth designs, finding some pipelines exceed false discovery rates by up to 29-fold.

This study investigates how NF45-NF90 heterodimers bind and coat long dsRNA, revealing structural changes and implications for RNA processing.

This study identifies transporters and a selectivity determinant in Leu-tRNA synthetase in Bacillus subtilis, revealing how photo-leucine is managed and its incorporation is limited to maintain cellular tolerance.

The paper shows that asymmetric bivalent nucleosomes at developmental gene promoters promote a poised state by recruiting repressive H3K27me3 binders and specific chromatin proteins like KAT6B, which is critical for ESC differentiation.

This study identifies a molecular mechanism by which condensin is recruited to pericentromeres through a conserved interaction between Ycg1 and Sgo1, ensuring proper chromosome segregation.

Prosit-XL improves cross-linked peptide identification by predicting fragment intensities, enhancing protein-protein interaction discovery and interactome mapping.

This study investigates how bS1 facilitates mRNA delivery to the ribosome and enhances translation initiation by RNAP in bacteria.

The paper improves deep learning-based structure modelling of protein complexes by integrating crosslinking mass spectrometry data, enhancing performance on challenging targets.

The paper identifies PLK1-mediated phosphorylation of Mis18 and Mis18BP1 as essential for activating the Mis18 complex to ensure CENP-A loading and centromere inheritance.

This paper improves crosslinking mass spectrometry by using diazirine-based photo-crosslinking to better study dynamic protein regions and their conformational changes.

The paper identifies issues in crosslinking mass spectrometry analysis where heuristic methods can distort error estimation, leading to false protein-protein interaction discoveries and proposes ways to correct this.

xiView is a platform for analyzing and visualizing Crosslinking Mass Spectrometry data, supporting multiple datasets and using coordinated visualization techniques.

The paper shows that 5'-pppG RNAs are less immunogenic than 5'-pppA RNAs due to interactions with GTP-binding proteins, which may help viruses and Pol III transcripts evade innate immune detection.

This paper uses adaptive laboratory evolution to replace tryptophan in E. coli with a synthetic analog, revealing that stress response inhibition, not translation rigidity, limits genetic code expansion.

The paper identifies DAXX as a novel histone chaperone pathway that deposits H3.3K9me3 before DNA deposition, expanding the histone chaperone network's role in heterochromatin assembly.