Ubiquitin and proteasome pathways

The paper shows that multiple transcription factors coordinate proteasome gene expression in response to catabolic stimuli, identifying PAX4 and PALNRF-1 as key regulators.

The paper presents the cryo-EM structure of a pentameric KCTD5/CUL3/Gβγ E3 ubiquitin ligase complex, revealing its dynamic architecture and mechanism for ubiquitylating Gβγ.

This paper quantifies ubiquitylation site occupancy and turnover rates, revealing their relationship to phosphorylation and identifying a surveillance mechanism protecting E1/E2 enzymes.

The paper uses cryo-EM to visualize the assembly of the human 20S proteasome, revealing how chaperones and propeptides guide subunit incorporation and proteasome activation.

This study investigates Cu2+ ion binding and conformational flexibility in SUMO2, showing its impact on aggregation and non-covalent interactions with SIMs.

The paper investigates the proteasome-dependent degradation of histone H1 subtypes, showing that their C-terminal domain mediates degradation by the 20S proteasome.

This study shows that PI31 inhibits constitutive 20S proteasomes more effectively than immuno-20S proteasomes due to differential interactions and proteolysis.

The paper identifies FBXW11 as a ubiquitin ligase that targets IL-17RA for proteasomal degradation through lysine 27-linked polyubiquitin chains.

This study characterizes DCAF12 interactions with MAGEA3 and CCT5 degrons using biophysical assays and cryo-EM, revealing key residues for degron recognition and informing PROTAC design.

This study identifies the D2 domain of DTX3L as critical for forming oligomeric complexes that enable the DTX3L-PARP9 complex to read mono-ADP-ribosylated androgen receptor.

DEGRONOPEDIA provides a web server for analyzing degron motifs across seven model organisms, integrating sequence, structure, and modification data to support degron research.

The paper identifies ubiquitinated proteins in ischemic stroke using proteomics and shows that ubiquitination modulates kinase activity at the postsynaptic density.

This study defines the substrate recognition mechanism of Doa10 using structural and functional analyses in yeast, revealing a lateral tunnel and fence-like domains that facilitate substrate access.

This study identifies the interaction between MAGEA4 and RAD18 using NMR and AlphaFold2, revealing structural insights into how MAGEA4 regulates RAD18's ubiquitination activity and its implications for cancer.

This study investigates Bortezomib resistance mechanisms in prostate cancer cells, identifying restored proteasome activity, pro-survival pathways, autophagy induction, and reduced reactive oxygen species generation as key factors.

This paper identifies that proteasome condensates in yeast form via multivalent interactions involving K48-linked ubiquitin chains, shuttle factors Rad23 and Dsk2, and proteasome receptors, suggesting functional specificity in condensate formation.

The paper demonstrates bidirectional substrate shuttling between the 26S proteasome and Cdc48 ATPase in yeast, showing how this process facilitates protein degradation.

This study identifies shared and distinct mechanisms of UBA1 inactivation in VEXAS syndrome and related diseases, revealing how different mutations affect ubiquitin transfer to E2 enzymes.

This paper reveals that USP deubiquitinases use different catalytic mechanisms, with some relying on a conserved aspartate instead of a canonical third residue for catalysis.

The paper directly observes Hrd1 autoubiquitination by analyzing its oligomeric states in proteoliposomes and identifies dimers as the minimal functional unit for this process.

This study shows that everolimus, a rapamycin analog, uniquely affects the ubiquitin-proteasome system by increasing ubiquitin levels and altering polyubiquitination patterns, distinct from its analogs.

The paper identifies a novel UEV-Vps23 family protein in Asgard archaea that mediates an ancient ESCRT-ubiquitin interplay, suggesting this pathway predates eukaryotic endomembrane systems.

The paper shows hypoxia reduces EXOSC10 SUMOylation, leading to its nuclear translocation and changes in mRNA transcriptome related to hypoxia.

This paper shows that MARCHF8 stabilizes HPV E7 by degrading CUL1 and UBE2L3, preventing E7 degradation in HPV+ HNC cells.

This study shows that multi-monoubiquitination of VASP at specific lysine residues negatively regulates its actin-binding and bundling activities, affecting cell spreading morphology.

The paper shows that ZNRF3/RNF43 ubiquitinates and degrades EGFR, and their loss increases EGFR signaling, promoting cancer growth.

This study identifies how RNF12/RLIM E3 ubiquitin ligase targets specific genomic regions to regulate gene expression through chromatin interactions and autoinhibitory mechanisms.

This study identifies and characterizes a novel E3 ligase module in UBR4, revealing its structural and biochemical specificity for UBE2A and its role in the N-degron pathway.