Published in EMBO J on April 23, 2009
Monoubiquitination of RPN10 regulates substrate recruitment to the proteasome. Mol Cell (2010) 2.13
The predator becomes the prey: regulating the ubiquitin system by ubiquitylation and degradation. Nat Rev Mol Cell Biol (2011) 1.73
Why do cellular proteins linked to K63-polyubiquitin chains not associate with proteasomes? EMBO J (2013) 1.53
The loop-less tmCdc34 E2 mutant defective in polyubiquitination in vitro and in vivo supports yeast growth in a manner dependent on Ubp14 and Cka2. Cell Div (2011) 1.48
Ube2w and ataxin-3 coordinately regulate the ubiquitin ligase CHIP. Mol Cell (2011) 1.37
Assembly, analysis and architecture of atypical ubiquitin chains. Nat Struct Mol Biol (2013) 1.27
Ubiquitin makes its mark on immune regulation. Immunity (2010) 1.25
A photoconvertible reporter of the ubiquitin-proteasome system in vivo. Nat Methods (2010) 1.20
Forging isopeptide bonds using thiol-ene chemistry: site-specific coupling of ubiquitin molecules for studying the activity of isopeptidases. J Am Chem Soc (2012) 1.14
Ubiquitin modifications. Cell Res (2016) 1.10
Mixed-linkage ubiquitin chains send mixed messages. Structure (2013) 1.09
The Machado-Joseph disease deubiquitylase ATX-3 couples longevity and proteostasis. Nat Cell Biol (2011) 1.08
Deubiquitinase-based analysis of ubiquitin chain architecture using Ubiquitin Chain Restriction (UbiCRest). Nat Protoc (2015) 1.08
Uncovering ubiquitin and ubiquitin-like signaling networks. Chem Rev (2011) 1.06
Mechanisms for countering oxidative stress and damage in retinal pigment epithelium. Int Rev Cell Mol Biol (2012) 1.05
An optimal ubiquitin-proteasome pathway in the nervous system: the role of deubiquitinating enzymes. Front Mol Neurosci (2014) 1.01
E2 conjugating enzyme selectivity and requirements for function of the E3 ubiquitin ligase CHIP. J Biol Chem (2011) 0.97
Misframed ubiquitin and impaired protein quality control: an early event in Alzheimer's disease. Front Mol Neurosci (2015) 0.94
The E3 ligase CHIP: insights into its structure and regulation. Biomed Res Int (2014) 0.90
Disassembly of Lys11 and mixed linkage polyubiquitin conjugates provides insights into function of proteasomal deubiquitinases Rpn11 and Ubp6. J Biol Chem (2014) 0.89
Ubiquitinated proteome: ready for global? Mol Cell Proteomics (2011) 0.87
Activated inositol 1,4,5-trisphosphate receptors are modified by homogeneous Lys-48- and Lys-63-linked ubiquitin chains, but only Lys-48-linked chains are required for degradation. J Biol Chem (2010) 0.86
The Proteasome Distinguishes between Heterotypic and Homotypic Lysine-11-Linked Polyubiquitin Chains. Cell Rep (2015) 0.86
Antioxidant, Anti-inflammatory and Antiproliferative Effects of Aqueous Extracts of Three Mediterranean Brown Seaweeds of the Genus Cystoseira. Iran J Pharm Res (2014) 0.85
Nonenzymatic assembly of branched polyubiquitin chains for structural and biochemical studies. Bioorg Med Chem (2013) 0.84
The ubiquitin-conjugating enzyme, UbcM2, is restricted to monoubiquitylation by a two-fold mechanism that involves backside residues of E2 and Lys48 of ubiquitin. Biochemistry (2014) 0.82
The recognition of ubiquitinated proteins by the proteasome. Cell Mol Life Sci (2016) 0.81
Identification and characterization of a novel ISG15-ubiquitin mixed chain and its role in regulating protein homeostasis. Sci Rep (2015) 0.80
Angelman syndrome-associated ubiquitin ligase UBE3A/E6AP mutants interfere with the proteolytic activity of the proteasome. Cell Death Dis (2015) 0.80
MDM2 mediates nonproteolytic polyubiquitylation of the DEAD-Box RNA helicase DDX24. Mol Cell Biol (2014) 0.78
Degradation of activated K-Ras orthologue via K-Ras-specific lysine residues is required for cytokinesis. J Biol Chem (2013) 0.78
The degradation of p53 and its major E3 ligase Mdm2 is differentially dependent on the proteasomal ubiquitin receptor S5a. Oncogene (2013) 0.78
Nonconformity in ubiquitin compliance. EMBO J (2009) 0.77
Repair or Destruction: An Intimate Liaison Between Ubiquitin Ligases and Molecular Chaperones in Proteostasis. FEBS Lett (2017) 0.77
The Logic of the 26S Proteasome. Cell (2017) 0.76
Differential Contributions of Ubiquitin-Modified APOBEC3G Lysine Residues to HIV-1 Vif-Induced Degradation. J Mol Biol (2016) 0.75
Ubiquitin Chain Enrichment Middle-Down Mass Spectrometry Enables Characterization of Branched Ubiquitin Chains in Cellulo. Anal Chem (2017) 0.75
Mass spectrometric sequencing of proteins silver-stained polyacrylamide gels. Anal Chem (1996) 45.70
The ubiquitin system. Annu Rev Biochem (1998) 43.36
The ubiquitin-proteasome proteolytic pathway: destruction for the sake of construction. Physiol Rev (2002) 16.10
Activation of the IkappaB kinase complex by TRAF6 requires a dimeric ubiquitin-conjugating enzyme complex and a unique polyubiquitin chain. Cell (2000) 10.90
A proteomics approach to understanding protein ubiquitination. Nat Biotechnol (2003) 10.51
A multiubiquitin chain is confined to specific lysine in a targeted short-lived protein. Science (1989) 9.68
Themes and variations on ubiquitylation. Nat Rev Mol Cell Biol (2001) 8.68
Regulation of membrane protein transport by ubiquitin and ubiquitin-binding proteins. Annu Rev Cell Dev Biol (2003) 8.13
A proteolytic pathway that recognizes ubiquitin as a degradation signal. J Biol Chem (1995) 7.79
A single motif responsible for ubiquitin recognition and monoubiquitination in endocytic proteins. Nature (2002) 6.22
Proteasomes and their kin: proteases in the machine age. Nat Rev Mol Cell Biol (2004) 5.14
A series of ubiquitin binding factors connects CDC48/p97 to substrate multiubiquitylation and proteasomal targeting. Cell (2005) 4.97
A 26 S protease subunit that binds ubiquitin conjugates. J Biol Chem (1994) 4.93
The ubiquitin proteasome system in neurodegenerative diseases: sometimes the chicken, sometimes the egg. Neuron (2003) 4.49
Cellular defenses against unfolded proteins: a cell biologist thinks about neurodegenerative diseases. Neuron (2001) 4.43
Mechanism of ubiquitin-chain formation by the human anaphase-promoting complex. Cell (2008) 4.33
Quantitative analysis of in vitro ubiquitinated cyclin B1 reveals complex chain topology. Nat Cell Biol (2006) 4.25
Multiubiquitin chain receptors define a layer of substrate selectivity in the ubiquitin-proteasome system. Cell (2004) 3.84
Certain pairs of ubiquitin-conjugating enzymes (E2s) and ubiquitin-protein ligases (E3s) synthesize nondegradable forked ubiquitin chains containing all possible isopeptide linkages. J Biol Chem (2007) 3.68
Proteins containing the UBA domain are able to bind to multi-ubiquitin chains. Nat Cell Biol (2001) 3.62
A ubiquitin mutant with specific defects in DNA repair and multiubiquitination. Mol Cell Biol (1995) 3.56
The multiubiquitin-chain-binding protein Mcb1 is a component of the 26S proteasome in Saccharomyces cerevisiae and plays a nonessential, substrate-specific role in protein turnover. Mol Cell Biol (1996) 3.41
Inhibition of proteolysis and cell cycle progression in a multiubiquitination-deficient yeast mutant. Mol Cell Biol (1994) 3.27
A ubiquitin-interacting motif conserved in components of the proteasomal and lysosomal protein degradation systems. Trends Biochem Sci (2001) 3.24
Rad23 promotes the targeting of proteolytic substrates to the proteasome. Mol Cell Biol (2002) 3.01
The BRCA1/BARD1 heterodimer assembles polyubiquitin chains through an unconventional linkage involving lysine residue K6 of ubiquitin. J Biol Chem (2003) 2.89
Ubiquitin chains are remodeled at the proteasome by opposing ubiquitin ligase and deubiquitinating activities. Cell (2006) 2.87
Lingering mysteries of ubiquitin-chain assembly. Cell (2006) 2.69
Subunit interaction maps for the regulatory particle of the 26S proteasome and the COP9 signalosome. EMBO J (2001) 2.66
In vitro assembly and recognition of Lys-63 polyubiquitin chains. J Biol Chem (2001) 2.42
Interaction of hHR23 with S5a. The ubiquitin-like domain of hHR23 mediates interaction with S5a subunit of 26 S proteasome. J Biol Chem (1999) 2.30
Structure of S5a bound to monoubiquitin provides a model for polyubiquitin recognition. J Mol Biol (2005) 2.22
Extraproteasomal Rpn10 restricts access of the polyubiquitin-binding protein Dsk2 to proteasome. Mol Cell (2008) 2.12
A genomic screen identifies Dsk2p and Rad23p as essential components of ER-associated degradation. EMBO Rep (2004) 2.02
Mass spectrometric and mutational analyses reveal Lys-6-linked polyubiquitin chains catalyzed by BRCA1-BARD1 ubiquitin ligase. J Biol Chem (2003) 1.97
Pleiotropic defects caused by loss of the proteasome-interacting factors Rad23 and Rpn10 of Saccharomyces cerevisiae. Genetics (1999) 1.81
Proteasome-mediated degradation of cotranslationally damaged proteins involves translation elongation factor 1A. Mol Cell Biol (2005) 1.74
Heat shock and oxygen radicals stimulate ubiquitin-dependent degradation mainly of newly synthesized proteins. J Cell Biol (2008) 1.71
A uniform isopeptide-linked multiubiquitin chain is sufficient to target substrate for degradation in ubiquitin-mediated proteolysis. J Biol Chem (1990) 1.62
Arabidopsis MBP1 gene encodes a conserved ubiquitin recognition component of the 26S proteasome. Proc Natl Acad Sci U S A (1996) 1.58
Ubiquitin-like proteins and Rpn10 play cooperative roles in ubiquitin-dependent proteolysis. Biochem Biophys Res Commun (2002) 1.57
The ubiquitin-interacting motifs target the endocytic adaptor protein epsin for ubiquitination. Curr Biol (2002) 1.53
Analysis of Drosophila 26 S proteasome using RNA interference. J Biol Chem (2001) 1.46
Analysis of the role of ubiquitin-interacting motifs in ubiquitin binding and ubiquitylation. J Biol Chem (2004) 1.41
Inhibition of ubiquitin-mediated proteolysis by the Arabidopsis 26 S protease subunit S5a. J Biol Chem (1995) 1.25
A ubiquitin-interacting motif (UIM) is essential for Eps15 and Eps15R ubiquitination. J Biol Chem (2002) 1.23
Rpn10-mediated degradation of ubiquitinated proteins is essential for mouse development. Mol Cell Biol (2007) 1.21
Analysis of a gene encoding Rpn10 of the fission yeast proteasome reveals that the polyubiquitin-binding site of this subunit is essential when Rpn12/Mts3 activity is compromised. J Biol Chem (2000) 1.20
Cloning and sequencing a non-ATPase subunit of the regulatory complex of the Drosophila 26S protease. Eur J Biochem (1995) 1.14
The ubiquitin-interacting motif protein, S5a, is ubiquitinated by all types of ubiquitin ligases by a mechanism different from typical substrate recognition. J Biol Chem (2009) 1.10
26 S proteasomes function as stable entities. J Mol Biol (2002) 0.91
ATPase and ubiquitin-binding proteins of the yeast proteasome. Mol Biol Rep (1997) 0.88
The 26S proteasome Rpn10 gene encoding splicing isoforms: evolutional conservation of the genomic organization in vertebrates. Biol Chem (2002) 0.81
The U-box ligase carboxyl-terminus of Hsc 70-interacting protein ubiquitylates Epsin. Biochem Biophys Res Commun (2005) 0.81
Subunit S5a of the 26S proteasome is regulated by antiapoptotic signals. FEBS J (2007) 0.78
The impact of microRNAs on protein output. Nature (2008) 32.39
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat Methods (2007) 25.29
Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes. Autophagy (2007) 20.92
ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage. Science (2007) 20.11
Nutrient control of glucose homeostasis through a complex of PGC-1alpha and SIRT1. Nature (2005) 18.41
Global survey of phosphotyrosine signaling identifies oncogenic kinases in lung cancer. Cell (2007) 17.98
Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase. Science (2004) 17.38
Radiation exposure from CT scans in childhood and subsequent risk of leukaemia and brain tumours: a retrospective cohort study. Lancet (2012) 15.74
A PGC1-α-dependent myokine that drives brown-fat-like development of white fat and thermogenesis. Nature (2012) 14.67
A probability-based approach for high-throughput protein phosphorylation analysis and site localization. Nat Biotechnol (2006) 12.13
Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: the yeast proteome. J Proteome Res (2003) 11.96
Defining the human deubiquitinating enzyme interaction landscape. Cell (2009) 11.39
Network organization of the human autophagy system. Nature (2010) 11.38
Foxo transcription factors induce the atrophy-related ubiquitin ligase atrogin-1 and cause skeletal muscle atrophy. Cell (2004) 11.33
Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS. Proc Natl Acad Sci U S A (2003) 10.82
Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc Natl Acad Sci U S A (2004) 10.78
A proteomics approach to understanding protein ubiquitination. Nat Biotechnol (2003) 10.51
A quantitative atlas of mitotic phosphorylation. Proc Natl Acad Sci U S A (2008) 10.07
FoxO3 controls autophagy in skeletal muscle in vivo. Cell Metab (2007) 8.90
A tissue-specific atlas of mouse protein phosphorylation and expression. Cell (2010) 8.65
FoxO3 coordinately activates protein degradation by the autophagic/lysosomal and proteasomal pathways in atrophying muscle cells. Cell Metab (2007) 8.05
Systematic and quantitative assessment of the ubiquitin-modified proteome. Mol Cell (2011) 7.30
Multiple types of skeletal muscle atrophy involve a common program of changes in gene expression. FASEB J (2004) 7.02
Comprehensive proteomic analysis of the human spliceosome. Nature (2002) 6.85
Abraxas and RAP80 form a BRCA1 protein complex required for the DNA damage response. Science (2007) 6.77
Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations. Nat Methods (2005) 6.73
mTOR and S6K1 mediate assembly of the translation preinitiation complex through dynamic protein interchange and ordered phosphorylation events. Cell (2005) 6.71
Identification of the FANCI protein, a monoubiquitinated FANCD2 paralog required for DNA repair. Cell (2007) 6.68
Large-scale phosphorylation analysis of mouse liver. Proc Natl Acad Sci U S A (2007) 6.08
An iterative statistical approach to the identification of protein phosphorylation motifs from large-scale data sets. Nat Biotechnol (2005) 5.93
Phosphoproteomic analysis identifies Grb10 as an mTORC1 substrate that negatively regulates insulin signaling. Science (2011) 5.73
An AMPK-FOXO pathway mediates longevity induced by a novel method of dietary restriction in C. elegans. Curr Biol (2007) 5.48
Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair. Cell (2009) 5.41
Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution. Science (2009) 5.37
Human ESCRT and ALIX proteins interact with proteins of the midbody and function in cytokinesis. EMBO J (2007) 5.31
PGC-1alpha protects skeletal muscle from atrophy by suppressing FoxO3 action and atrophy-specific gene transcription. Proc Natl Acad Sci U S A (2006) 5.28
Reversal of cancer cachexia and muscle wasting by ActRIIB antagonism leads to prolonged survival. Cell (2010) 5.23
Tumor-promoting phorbol esters and activated Ras inactivate the tuberous sclerosis tumor suppressor complex via p90 ribosomal S6 kinase. Proc Natl Acad Sci U S A (2004) 5.16
The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry. Nat Protoc (2008) 5.10
Enhancement of proteasome activity by a small-molecule inhibitor of USP14. Nature (2010) 5.08
Signaling networks assembled by oncogenic EGFR and c-Met. Proc Natl Acad Sci U S A (2008) 5.08
Initiation of myoblast to brown fat switch by a PRDM16-C/EBP-beta transcriptional complex. Nature (2009) 4.98
BAD and glucokinase reside in a mitochondrial complex that integrates glycolysis and apoptosis. Nature (2003) 4.80
Regulation of monoubiquitinated PCNA by DUB autocleavage. Nat Cell Biol (2006) 4.67
Docking of the proteasomal ATPases' carboxyl termini in the 20S proteasome's alpha ring opens the gate for substrate entry. Mol Cell (2007) 4.54
Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell (2004) 4.34
Quantitative analysis of in vitro ubiquitinated cyclin B1 reveals complex chain topology. Nat Cell Biol (2006) 4.25
Optimization and use of peptide mass measurement accuracy in shotgun proteomics. Mol Cell Proteomics (2006) 4.25
The energy sensor AMP-activated protein kinase directly regulates the mammalian FOXO3 transcription factor. J Biol Chem (2007) 4.22
Toca-1 mediates Cdc42-dependent actin nucleation by activating the N-WASP-WIP complex. Cell (2004) 4.21
Ubiquitin-like protein involved in the proteasome pathway of Mycobacterium tuberculosis. Science (2008) 4.15
Protein degradation by the ubiquitin-proteasome pathway in normal and disease states. J Am Soc Nephrol (2006) 4.01
Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae. Mol Cell Proteomics (2002) 3.89
The conserved Bardet-Biedl syndrome proteins assemble a coat that traffics membrane proteins to cilia. Cell (2010) 3.83
Identification of aneuploidy-tolerating mutations. Cell (2010) 3.73
SDH5, a gene required for flavination of succinate dehydrogenase, is mutated in paraganglioma. Science (2009) 3.72
Low-dose abdominal CT for evaluating suspected appendicitis. N Engl J Med (2012) 3.71
The absolute quantification strategy: a general procedure for the quantification of proteins and post-translational modifications. Methods (2005) 3.71
Association of the histone methyltransferase Set2 with RNA polymerase II plays a role in transcription elongation. J Biol Chem (2002) 3.70
SCF(FBW7) regulates cellular apoptosis by targeting MCL1 for ubiquitylation and destruction. Nature (2011) 3.69
Certain pairs of ubiquitin-conjugating enzymes (E2s) and ubiquitin-protein ligases (E3s) synthesize nondegradable forked ubiquitin chains containing all possible isopeptide linkages. J Biol Chem (2007) 3.68
Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization. Nature (2013) 3.57
Mechanism of gate opening in the 20S proteasome by the proteasomal ATPases. Mol Cell (2008) 3.49
The ER aminopeptidase ERAP1 enhances or limits antigen presentation by trimming epitopes to 8-9 residues. Nat Immunol (2002) 3.45
MS3 eliminates ratio distortion in isobaric multiplexed quantitative proteomics. Nat Methods (2011) 3.40
A mitochondrial pyruvate carrier required for pyruvate uptake in yeast, Drosophila, and humans. Science (2012) 3.39
A molecular determinant for the establishment of sister chromatid cohesion. Science (2008) 3.39
A chromatin localization screen reveals poly (ADP ribose)-regulated recruitment of the repressive polycomb and NuRD complexes to sites of DNA damage. Proc Natl Acad Sci U S A (2010) 3.31
A protein complex network of Drosophila melanogaster. Cell (2011) 3.31
Intensity-based protein identification by machine learning from a library of tandem mass spectra. Nat Biotechnol (2004) 3.30
Activation of multiple proto-oncogenic tyrosine kinases in breast cancer via loss of the PTPN12 phosphatase. Cell (2011) 3.27
Rapid disuse and denervation atrophy involve transcriptional changes similar to those of muscle wasting during systemic diseases. FASEB J (2006) 3.27
A UAF1-containing multisubunit protein complex regulates the Fanconi anemia pathway. Mol Cell (2007) 3.27
Angiogenin-induced tRNA fragments inhibit translation initiation. Mol Cell (2011) 3.23
An IFN-gamma-induced aminopeptidase in the ER, ERAP1, trims precursors to MHC class I-presented peptides. Nat Immunol (2002) 3.22
Deubiquitinating enzyme Ubp6 functions noncatalytically to delay proteasomal degradation. Cell (2006) 3.21
ATP hydrolysis by the proteasome regulatory complex PAN serves multiple functions in protein degradation. Mol Cell (2003) 3.14
Profiling of UV-induced ATM/ATR signaling pathways. Proc Natl Acad Sci U S A (2007) 3.12
SR proteins function in coupling RNAP II transcription to pre-mRNA splicing. Mol Cell (2007) 3.04
During muscle atrophy, thick, but not thin, filament components are degraded by MuRF1-dependent ubiquitylation. J Cell Biol (2009) 3.03
Hem-1 complexes are essential for Rac activation, actin polymerization, and myosin regulation during neutrophil chemotaxis. PLoS Biol (2006) 3.01
Chemical genetic screen for AMPKα2 substrates uncovers a network of proteins involved in mitosis. Mol Cell (2011) 2.99
Metabolic regulation of protein N-alpha-acetylation by Bcl-xL promotes cell survival. Cell (2011) 2.98
Steps in assembly of silent chromatin in yeast: Sir3-independent binding of a Sir2/Sir4 complex to silencers and role for Sir2-dependent deacetylation. Mol Cell Biol (2002) 2.93
Eukaryotic proteasomes cannot digest polyglutamine sequences and release them during degradation of polyglutamine-containing proteins. Mol Cell (2004) 2.89
Ubiquitin chains are remodeled at the proteasome by opposing ubiquitin ligase and deubiquitinating activities. Cell (2006) 2.87
Semiquantitative proteomic analysis of rat forebrain postsynaptic density fractions by mass spectrometry. J Biol Chem (2004) 2.84
IGF-I stimulates muscle growth by suppressing protein breakdown and expression of atrophy-related ubiquitin ligases, atrogin-1 and MuRF1. Am J Physiol Endocrinol Metab (2004) 2.82
ATP binding to PAN or the 26S ATPases causes association with the 20S proteasome, gate opening, and translocation of unfolded proteins. Mol Cell (2005) 2.82
A function for cyclin D1 in DNA repair uncovered by protein interactome analyses in human cancers. Nature (2011) 2.82
RNAi-dependent and -independent RNA turnover mechanisms contribute to heterochromatic gene silencing. Cell (2007) 2.78
Akt-RSK-S6 kinase signaling networks activated by oncogenic receptor tyrosine kinases. Sci Signal (2010) 2.64
Weighing in on ubiquitin: the expanding role of mass-spectrometry-based proteomics. Nat Cell Biol (2005) 2.62
Dynamics of cullin-RING ubiquitin ligase network revealed by systematic quantitative proteomics. Cell (2010) 2.59
Importance of the different proteolytic sites of the proteasome and the efficacy of inhibitors varies with the protein substrate. J Biol Chem (2006) 2.59
A proteomic strategy for gaining insights into protein sumoylation in yeast. Mol Cell Proteomics (2004) 2.58
Distinct phosphorylation sites on the β(2)-adrenergic receptor establish a barcode that encodes differential functions of β-arrestin. Sci Signal (2011) 2.56