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ProteomicsNuclear pore complexes interactome dissection
We purified the different types of NPCs in yeast using a differential affinity purification strategy and analyzed their respective compositions and interactomes by mass spectrometry. Therefore, we compared the relative abundancies of specific nuclear factors and NPCs associated factor between all po...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-10-13 | PXD027872 | Pride
Nuclear pore heterogeneity Affinity purification Mrna maturation 
ProteomicsComposition of the mitoribosome of Diplonema papillatum
Biosynthesis of mitochondrial genome-encoded proteins is carried out by the mitoribosome, a specialized apparatus that has evolved and diverged dramatically since its bacterial origin. Recent studies across various eukaryotes have demonstrated widespread structural and compositional diversity of mit...
ORGANISM(S): Diplonema papillatum 
2023-10-24 | PXD040176 | Pride
Diplonema papillatum Flagellate Mitoribosome Assembly intermediate Affinity pulldown Lc-msms 
ProteomicsProtein UFMylation regulates ribosomal DNA double-stranded break repair
Ribosomal DNA (rDNA) arrays are highly repetitive regions of the genome which encode essential genes required to produce ribosomes. DNA double-stranded breaks (DSBs) generated within rDNA genes elicit a unique cellular response involving robust transcriptional silencing and nucleolar reorganization ...
ORGANISM(S): Homo sapiens (Human) 
2024-09-16 | PXD048568 | Pride
Tcof1 Ufmylation Htert-rpe1 Treacle Nucleolus Ribosomal dna repair Lc-msms 
ProteomicsAdaptive partitioning of a gene locus to the nuclear envelope in Saccharomyces cerevisiae is driven by polymer-polymer phase separation
Partitioning of active gene loci to the nuclear envelope is a key mechanism by which organisms can increase the speed of adaptation and metabolic robustness to fluctuating resources in the environment. In the budding yeast Saccharomyces cerevisiae, adaptation and transcriptional memory induced by nu...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2023-03-01 | PXD029913 | Pride
Active gene Nuclear envelope Ino1 Gene partitioning Chromatin decompaction Active chromatin Phase separation 
ProteomicsImpact of KsgA/Dim1 on proteostasis in Haloferax volcanii and Escherichia coli
Shotgun label-free analysis of Haloferax volcanii wildtype cells in comparison to strains deleted and catalytically impaired of the almost universally conserved ribosomal RNA dimethyltransferase KsgA/Dim1and of Escherichia coli wildtype strain in comparison to KsgA/Dim1 deleted strain.
ORGANISM(S): Haloferax volcanii (Halobacterium volcanii) Escherichia coli 
2021-01-25 | PXD021827 | Pride
Ksga Escherichia coli. Ribosome M6a Archaea Haloferax volcanii Dim1 Dimethyltransferase 
ProteomicsS. cerevisiae Nab2-PrA interactomes in exosome, transport and ribosome biogenesis mutant backgrounds
RNA-binding proteins (RBPs) are key mediators of RNAbiogenesis and metabolism. An RBP can be dedicated to a specific transcript class (e.g. mRNAs) or function broadly across both coding and non-coding RNAs. Consequently, nuclear RNA homeostasis requires maintenance of bothRBP binding specificity and...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-10-08 | PXD021855 | Pride
Exosome Ribosome biogenesis Rna processing Polyadenylation Rna homeostasis 
ProteomicsUnderstanding the role of RbgA in the assembly process of the 50S subunit.
Ribosomes must be formed quickly (to support cellular growth demands) and accurately (to ensure proper translation of the genetic code). The assembly of ribosomes in vivo requires not only the constituent rRNAs and ribosomal proteins (r-proteins), but also assembly factors. Several of these factors ...
ORGANISM(S): Bacillus subtilis subsp. subtilis str. 168 
2022-01-27 | PXD023644 | Pride
Ribosome assembly  50s subunit  ul6 Rbga  ylqf  cryo-electron microscopy. 
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