Ubiquitin-binding domains—from structures to functions

I Dikic, S Wakatsuki, KJ Walters - Nature reviews Molecular cell biology, 2009 - nature.com
Ubiquitin-binding domains (UBDs) are modular elements that bind non-covalently to the
protein modifier ubiquitin. Recent atomic-level resolution structures of ubiquitin–UBD …

The functional interactome landscape of the human histone deacetylase family

P Joshi, TM Greco, AJ Guise, Y Luo, F Yu… - Molecular systems …, 2013 - embopress.org
Histone deacetylases (HDACs) are a diverse family of essential transcriptional regulatory
enzymes, that function through the spatial and temporal recruitment of protein complexes. As …

[HTML][HTML] Ubiquitin and its binding domains

L Randles, KJ Walters - Frontiers in bioscience (Landmark edition), 2012 - ncbi.nlm.nih.gov
Post-translational modification by ubiquitin (ubiquitination, ubiquitylation, ubiquitinylation) is
used as a robust signaling mechanism in a variety of processes that are essential for cell …

The UBX domain in UBXD1 organizes ubiquitin binding at the C-terminus of the VCP/p97 AAA-ATPase

M Blueggel, A Kroening, M Kracht… - Nature …, 2023 - nature.com
Abstract The AAA+ ATPase p97/VCP together with different sets of substrate-delivery
adapters and accessory cofactor proteins unfolds ubiquitinated substrates to facilitate …

WD40 repeat propellers define a ubiquitin-binding domain that regulates turnover of F box proteins

N Pashkova, L Gakhar, SC Winistorfer, L Yu… - Molecular cell, 2010 - cell.com
WD40-repeat β-propellers are found in a wide range of proteins involved in distinct
biological activities. We define a large subset of WD40 β-propellers as a class of ubiquitin …

Doa1 targets ubiquitinated substrates for mitochondria-associated degradation

X Wu, L Li, H Jiang - Journal of Cell Biology, 2016 - rupress.org
Mitochondria-associated degradation (MAD) mediated by the Cdc48 complex and
proteasome degrades ubiquitinated mitochondrial outer-membrane proteins. MAD is critical …

Internally tagged ubiquitin: a tool to identify linear polyubiquitin-modified proteins by mass spectrometry

K Kliza, C Taumer, I Pinzuti, M Franz-Wachtel… - Nature …, 2017 - nature.com
Ubiquitination controls a plethora of cellular processes. Modifications by linear polyubiquitin
have so far been linked with acquired and innate immunity, lymphocyte development and …

Chromatin ubiquitination Guides DNA double strand break signaling and repair

KG Kolobynina, A Rapp, MC Cardoso - Frontiers in Cell and …, 2022 - frontiersin.org
Chromatin is the context for all DNA-based molecular processes taking place in the cell
nucleus. The initial chromatin structure at the site of the DNA damage determines both …

Structural insights into BAF47 and BAF155 complex formation

L Yan, S Xie, Y Du, C Qian - Journal of molecular biology, 2017 - Elsevier
Mammalian BAF complexes are a subfamily of SWI/SNF ATP-dependent chromatin
remodelers that dynamically modulate chromatin structure to regulate fundamental cellular …

The 'dark matter'of ubiquitin-mediated processes: opportunities and challenges in the identification of ubiquitin-binding domains

EH Radley, J Long, KC Gough… - Biochemical Society …, 2019 - portlandpress.com
Ubiquitin modifications of target proteins act to localise, direct and specify a diverse range of
cellular processes, many of which are biomedically relevant. To allow this diversity, ubiquitin …