Polyubiquitin chains: polymeric protein signals.

Regulation and cellular roles of ubiquitin-specific deubiquitinating enzymes. Annu Rev Biochem (2009) 6.23

Quantitative proteomics reveals the function of unconventional ubiquitin chains in proteasomal degradation. Cell (2009) 6.16

Structural insights into NEDD8 activation of cullin-RING ligases: conformational control of conjugation. Cell (2008) 6.07

Endocytosis and signalling: intertwining molecular networks. Nat Rev Mol Cell Biol (2009) 5.83

Building ubiquitin chains: E2 enzymes at work. Nat Rev Mol Cell Biol (2009) 5.41

Gamma-H2AX in recognition and signaling of DNA double-strand breaks in the context of chromatin. Nucleic Acids Res (2008) 4.79

Ubiquitylation and cell signaling. EMBO J (2005) 4.65

Ubiquitin-binding domains - from structures to functions. Nat Rev Mol Cell Biol (2009) 4.62

Ubiquitin-like protein activation by E1 enzymes: the apex for downstream signalling pathways. Nat Rev Mol Cell Biol (2009) 3.95

Molecular discrimination of structurally equivalent Lys 63-linked and linear polyubiquitin chains. EMBO Rep (2009) 3.94

Parkin-mediated K63-linked polyubiquitination targets misfolded DJ-1 to aggresomes via binding to HDAC6. J Cell Biol (2007) 3.13

E2 interaction and dimerization in the crystal structure of TRAF6. Nat Struct Mol Biol (2009) 2.79

Cullin-RING ubiquitin ligases: global regulation and activation cycles. Cell Div (2008) 2.63

Weighing in on ubiquitin: the expanding role of mass-spectrometry-based proteomics. Nat Cell Biol (2005) 2.62

A family of mammalian E3 ubiquitin ligases that contain the UBR box motif and recognize N-degrons. Mol Cell Biol (2005) 2.57

The two faces of protein misfolding: gain- and loss-of-function in neurodegenerative diseases. EMBO J (2008) 2.43

Linkage-specific avidity defines the lysine 63-linked polyubiquitin-binding preference of rap80. Mol Cell (2009) 2.39

Lysine-63-linked ubiquitination is required for endolysosomal degradation of class I molecules. EMBO J (2006) 2.39

c-IAP1 and UbcH5 promote K11-linked polyubiquitination of RIP1 in TNF signalling. EMBO J (2010) 2.33

Ubiquitin accumulation in autophagy-deficient mice is dependent on the Nrf2-mediated stress response pathway: a potential role for protein aggregation in autophagic substrate selection. J Cell Biol (2010) 2.32

In vivo identification of human small ubiquitin-like modifier polymerization sites by high accuracy mass spectrometry and an in vitro to in vivo strategy. Mol Cell Proteomics (2007) 2.30

Controlling the subcellular localization of DNA polymerases iota and eta via interactions with ubiquitin. EMBO J (2006) 2.25

Targeting proteins for degradation. Nat Chem Biol (2009) 2.22

Signaling to NF-kappaB: regulation by ubiquitination. Cold Spring Harb Perspect Biol (2010) 2.15

Protein partners of deubiquitinating enzymes. Biochem J (2008) 2.15

Linear polyubiquitination: a new regulator of NF-kappaB activation. EMBO Rep (2009) 2.15

SUMO-2/3 modification and binding regulate the association of CENP-E with kinetochores and progression through mitosis. Mol Cell (2008) 2.15

UBE2S drives elongation of K11-linked ubiquitin chains by the anaphase-promoting complex. Proc Natl Acad Sci U S A (2010) 2.15

Exploitation of eukaryotic ubiquitin signaling pathways by effectors translocated by bacterial type III and type IV secretion systems. PLoS Pathog (2007) 2.14

Phosphorylation of parkin by Parkinson disease-linked kinase PINK1 activates parkin E3 ligase function and NF-kappaB signaling. Hum Mol Genet (2009) 2.10

The deubiquitinating enzyme ataxin-3, a polyglutamine disease protein, edits Lys63 linkages in mixed linkage ubiquitin chains. J Biol Chem (2008) 2.09

Site-specific ubiquitination exposes a linear motif to promote interferon-alpha receptor endocytosis. J Cell Biol (2007) 2.07

E2-RING expansion of the NEDD8 cascade confers specificity to cullin modification. Mol Cell (2009) 1.98

The ubiquitin carboxyl hydrolase BAP1 forms a ternary complex with YY1 and HCF-1 and is a critical regulator of gene expression. Mol Cell Biol (2010) 1.96

Lysine 63-linked polyubiquitin chain may serve as a targeting signal for the 26S proteasome. EMBO J (2009) 1.93

K63-linked ubiquitin chains as a specific signal for protein sorting into the multivesicular body pathway. J Cell Biol (2009) 1.90

Ubiquitin ligase Nedd4 promotes alpha-synuclein degradation by the endosomal-lysosomal pathway. Proc Natl Acad Sci U S A (2011) 1.85

Evidence for bidentate substrate binding as the basis for the K48 linkage specificity of otubain 1. J Mol Biol (2009) 1.82

LUBAC synthesizes linear ubiquitin chains via a thioester intermediate. EMBO Rep (2012) 1.82

Ubiquitin-like small archaeal modifier proteins (SAMPs) in Haloferax volcanii. Nature (2010) 1.80

Sent to destroy: the ubiquitin proteasome system regulates cell signaling and protein quality control in cardiovascular development and disease. Circ Res (2010) 1.78

The structure and conformation of Lys63-linked tetraubiquitin. J Mol Biol (2009) 1.77

The Rsp5 ubiquitin ligase is coupled to and antagonized by the Ubp2 deubiquitinating enzyme. EMBO J (2005) 1.76

Polyubiquitin chains: functions, structures, and mechanisms. Cell Mol Life Sci (2008) 1.75

A targeted proteomic analysis of the ubiquitin-like modifier nedd8 and associated proteins. J Proteome Res (2008) 1.74

Affinity makes the difference: nonselective interaction of the UBA domain of Ubiquilin-1 with monomeric ubiquitin and polyubiquitin chains. J Mol Biol (2007) 1.71

Aggresome formation and neurodegenerative diseases: therapeutic implications. Curr Med Chem (2008) 1.68

SUSP1 antagonizes formation of highly SUMO2/3-conjugated species. J Cell Biol (2006) 1.67

Ku80 removal from DNA through double strand break-induced ubiquitylation. J Cell Biol (2008) 1.64

Molecular determinants of polyubiquitin linkage selection by an HECT ubiquitin ligase. EMBO J (2006) 1.64

Recognition of polyubiquitin isoforms by the multiple ubiquitin binding modules of isopeptidase T. J Biol Chem (2008) 1.64

Polyubiquitin-sensor proteins reveal localization and linkage-type dependence of cellular ubiquitin signaling. Nat Methods (2012) 1.62

Structural basis for the lack of E2 interaction in the RING domain of TRAF2. Biochemistry (2009) 1.60

Ubiquitin-proteasome pathway and cellular responses to oxidative stress. Free Radic Biol Med (2011) 1.59

Different HECT domain ubiquitin ligases employ distinct mechanisms of polyubiquitin chain synthesis. EMBO J (2005) 1.56

The mouse polyubiquitin gene UbC is essential for fetal liver development, cell-cycle progression and stress tolerance. EMBO J (2007) 1.56

Control of cell growth by the SCF and APC/C ubiquitin ligases. Curr Opin Cell Biol (2009) 1.55

Keap1 degradation by autophagy for the maintenance of redox homeostasis. Proc Natl Acad Sci U S A (2012) 1.53

Seven-transmembrane receptors and ubiquitination. Circ Res (2007) 1.52

Interactions between the quality control ubiquitin ligase CHIP and ubiquitin conjugating enzymes. BMC Struct Biol (2008) 1.49

Ubiquitin-regulated recruitment of IkappaB kinase epsilon to the MAVS interferon signaling adapter. Mol Cell Biol (2009) 1.49

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

Regulation of mitochondrial morphology by USP30, a deubiquitinating enzyme present in the mitochondrial outer membrane. Mol Biol Cell (2008) 1.48

Activated Protein C Ameliorates Renal Ischemia-Reperfusion Injury by Restricting Y-Box Binding Protein-1 Ubiquitination. J Am Soc Nephrol (2015) 1.48

Together, Rpn10 and Dsk2 can serve as a polyubiquitin chain-length sensor. Mol Cell (2009) 1.47

Systematic approach for validating the ubiquitinated proteome. Anal Chem (2008) 1.47

Ubiquitination directly enhances activity of the deubiquitinating enzyme ataxin-3. EMBO J (2009) 1.46

APC/C-mediated multiple monoubiquitylation provides an alternative degradation signal for cyclin B1. Nat Cell Biol (2012) 1.46

Suppression of the deubiquitinating enzyme USP5 causes the accumulation of unanchored polyubiquitin and the activation of p53. J Biol Chem (2008) 1.43

Cdt1 degradation to prevent DNA re-replication: conserved and non-conserved pathways. Cell Div (2007) 1.42

Parkin mediates the degradation-independent ubiquitination of Hsp70. J Neurochem (2008) 1.42

Regulation of the RSP5 ubiquitin ligase by an intrinsic ubiquitin-binding site. J Biol Chem (2009) 1.42

RNF4-dependent hybrid SUMO-ubiquitin chains are signals for RAP80 and thereby mediate the recruitment of BRCA1 to sites of DNA damage. Sci Signal (2012) 1.40

Linkage via K27 Bestows Ubiquitin Chains with Unique Properties among Polyubiquitins. Structure (2016) 1.40

The lysine 48 and lysine 63 ubiquitin conjugates are processed differently by the 26 s proteasome. J Biol Chem (2009) 1.39

Efficient internalization of MHC I requires lysine-11 and lysine-63 mixed linkage polyubiquitin chains. Traffic (2009) 1.39

SUMOylation and deSUMOylation at a glance. J Cell Sci (2009) 1.37

Polyubiquitin binding and disassembly by deubiquitinating enzymes. Chem Rev (2009) 1.36

Catalysis of lysine 48-specific ubiquitin chain assembly by residues in E2 and ubiquitin. Mol Cell (2010) 1.36

PDLIM2 suppresses human T-cell leukemia virus type I Tax-mediated tumorigenesis by targeting Tax into the nuclear matrix for proteasomal degradation. Blood (2009) 1.36

Avid interactions underlie the Lys63-linked polyubiquitin binding specificities observed for UBA domains. Nat Struct Mol Biol (2009) 1.35

Linear ubiquitin assembly complex negatively regulates RIG-I- and TRIM25-mediated type I interferon induction. Mol Cell (2011) 1.35

Dissecting the ubiquitin pathway by mass spectrometry. Biochim Biophys Acta (2006) 1.32

The DNA damage-inducible UbL-UbA protein Ddi1 participates in Mec1-mediated degradation of Ho endonuclease. Mol Cell Biol (2005) 1.30

K33-linked polyubiquitination of T cell receptor-zeta regulates proteolysis-independent T cell signaling. Immunity (2010) 1.30

Ubiquitin lysine 63 chain forming ligases regulate apical dominance in Arabidopsis. Plant Cell (2007) 1.30

Lysosomal localization of ubiquitinated Jun requires multiple determinants in a lysine-27-linked polyubiquitin conjugate. Mol Biol Cell (2008) 1.29

The E2 ubiquitin-conjugating enzymes direct polyubiquitination to preferred lysines. J Biol Chem (2010) 1.28

Lys6-modified ubiquitin inhibits ubiquitin-dependent protein degradation. J Biol Chem (2005) 1.26

Ubiquitin makes its mark on immune regulation. Immunity (2010) 1.25

A human ubiquitin conjugating enzyme (E2)-HECT E3 ligase structure-function screen. Mol Cell Proteomics (2012) 1.25

The ubiquitination code: a signalling problem. Cell Div (2007) 1.25

A perturbed ubiquitin landscape distinguishes between ubiquitin in trafficking and in proteolysis. Mol Cell Proteomics (2011) 1.25

The human F-Box DNA helicase FBH1 faces Saccharomyces cerevisiae Srs2 and postreplication repair pathway roles. Mol Cell Biol (2007) 1.25

PPARγ is an E3 ligase that induces the degradation of NFκB/p65. Nat Commun (2012) 1.23

Substrate filtering by the active site crossover loop in UCHL3 revealed by sortagging and gain-of-function mutations. J Biol Chem (2008) 1.22

A Drosophila model for Angelman syndrome. Proc Natl Acad Sci U S A (2008) 1.21

Polarity proteins and cell-cell interactions in the testis. Int Rev Cell Mol Biol (2009) 1.21

Conformational stabilization of ubiquitin yields potent and selective inhibitors of USP7. Nat Chem Biol (2012) 1.20

Molecular mechanisms of ubiquitin-dependent membrane traffic. Annu Rev Biophys (2011) 1.19

Atom-by-atom analysis of global downhill protein folding. Nature (2006) 4.50

Solution conformation of Lys63-linked di-ubiquitin chain provides clues to functional diversity of polyubiquitin signaling. J Biol Chem (2003) 3.30

Diverse polyubiquitin interaction properties of ubiquitin-associated domains. Nat Struct Mol Biol (2005) 3.27

Structural determinants for selective recognition of a Lys48-linked polyubiquitin chain by a UBA domain. Mol Cell (2005) 2.92

Structural properties of polyubiquitin chains in solution. J Mol Biol (2002) 2.72

Ubistatins inhibit proteasome-dependent degradation by binding the ubiquitin chain. Science (2004) 2.50

Crystal structure and solution NMR studies of Lys48-linked tetraubiquitin at neutral pH. J Mol Biol (2006) 2.22

Evidence for bidentate substrate binding as the basis for the K48 linkage specificity of otubain 1. J Mol Biol (2009) 1.82

Characterization of the overall and local dynamics of a protein with intermediate rotational anisotropy: Differentiating between conformational exchange and anisotropic diffusion in the B3 domain of protein G. J Biomol NMR (2003) 1.72

Affinity makes the difference: nonselective interaction of the UBA domain of Ubiquilin-1 with monomeric ubiquitin and polyubiquitin chains. J Mol Biol (2007) 1.71

A model of interdomain mobility in a multidomain protein. J Am Chem Soc (2007) 1.66

Unique structural, dynamical, and functional properties of k11-linked polyubiquitin chains. Structure (2013) 1.61

Analyses of the effects of all ubiquitin point mutants on yeast growth rate. J Mol Biol (2013) 1.59

Structure of the s5a:k48-linked diubiquitin complex and its interactions with rpn13. Mol Cell (2009) 1.57

Interdomain mobility in di-ubiquitin revealed by NMR. Proteins (2006) 1.55

Together, Rpn10 and Dsk2 can serve as a polyubiquitin chain-length sensor. Mol Cell (2009) 1.47

Avid interactions underlie the Lys63-linked polyubiquitin binding specificities observed for UBA domains. Nat Struct Mol Biol (2009) 1.35

Efficient and accurate determination of the overall rotational diffusion tensor of a molecule from (15)N relaxation data using computer program ROTDIF. J Magn Reson (2004) 1.32

Variability of the 15N chemical shielding tensors in the B3 domain of protein G from 15N relaxation measurements at several fields. Implications for backbone order parameters. J Am Chem Soc (2006) 1.30

Various strategies of using residual dipolar couplings in NMR-driven protein docking: application to Lys48-linked di-ubiquitin and validation against 15N-relaxation data. Proteins (2005) 1.26

An efficient computational method for predicting rotational diffusion tensors of globular proteins using an ellipsoid representation. J Am Chem Soc (2006) 1.22

Nonenzymatic assembly of natural polyubiquitin chains of any linkage composition and isotopic labeling scheme. J Am Chem Soc (2011) 1.17

Rpn1 and Rpn2 coordinate ubiquitin processing factors at proteasome. J Biol Chem (2012) 1.15

Mapping the interactions between Lys48 and Lys63-linked di-ubiquitins and a ubiquitin-interacting motif of S5a. J Mol Biol (2007) 1.09

Mixed-linkage ubiquitin chains send mixed messages. Structure (2013) 1.09

Structure and recognition of polyubiquitin chains of different lengths and linkage. F1000 Biol Rep (2011) 1.08

Mutations in the hydrophobic core of ubiquitin differentially affect its recognition by receptor proteins. J Mol Biol (2007) 1.07

Structural assembly of multidomain proteins and protein complexes guided by the overall rotational diffusion tensor. J Am Chem Soc (2007) 1.03

Recovering a representative conformational ensemble from underdetermined macromolecular structural data. J Am Chem Soc (2013) 1.00

Controlled enzymatic synthesis of natural-linkage, defined-length polyubiquitin chains using lysines with removable protecting groups. Chem Commun (Camb) (2011) 0.98

Structural and biochemical studies of the open state of Lys48-linked diubiquitin. Biochim Biophys Acta (2012) 0.97

A hierarchical algorithm for fast Debye summation with applications to small angle scattering. J Comput Chem (2012) 0.96

Improvement and analysis of computational methods for prediction of residual dipolar couplings. J Magn Reson (2009) 0.95

Structural assembly of molecular complexes based on residual dipolar couplings. J Am Chem Soc (2010) 0.94

Recognition and cleavage of related to ubiquitin 1 (Rub1) and Rub1-ubiquitin chains by components of the ubiquitin-proteasome system. Mol Cell Proteomics (2012) 0.93

Analysis of interdomain dynamics in a two-domain protein using residual dipolar couplings together with 15N relaxation data. Magn Reson Chem (2006) 0.93

Proteomic identification and analysis of K63-linked ubiquitin conjugates. Anal Chem (2012) 0.93

Measurement of 15N relaxation in deuterated amide groups in proteins using direct nitrogen detection. J Biomol NMR (2006) 0.92

Perturbing the ubiquitin pathway reveals how mitosis is hijacked to denucleate and regulate cell proliferation and differentiation in vivo. PLoS One (2010) 0.92

Direct measurement of the 15N CSA/dipolar relaxation interference from coupled HSQC spectra. J Biomol NMR (2003) 0.92

Condensed E. coli cultures for highly efficient production of proteins containing unnatural amino acids. Bioorg Med Chem Lett (2010) 0.91

Density functional calculations of 15N chemical shifts in solvated dipeptides. J Biomol NMR (2008) 0.90

Effects of cyclization on conformational dynamics and binding properties of Lys48-linked di-ubiquitin. Protein Sci (2007) 0.90

Deriving quantitative dynamics information for proteins and RNAs using ROTDIF with a graphical user interface. J Biomol NMR (2013) 0.88

Using NMR spectroscopy to monitor ubiquitin chain conformation and interactions with ubiquitin-binding domains. Methods Enzymol (2005) 0.87

Density functional calculations of chemical shielding of backbone 15N in helical residues of protein G. J Biomol NMR (2009) 0.86

Density functional calculations of backbone 15N shielding tensors in beta-sheet and turn residues of protein G. J Biomol NMR (2011) 0.86

Spin-state selection for increased confidence in cross-correlation rates measurements. J Biomol NMR (2005) 0.85

Segmental isotopic labeling of ubiquitin chains to unravel monomer-specific molecular behavior. Angew Chem Int Ed Engl (2011) 0.85

Nonenzymatic assembly of branched polyubiquitin chains for structural and biochemical studies. Bioorg Med Chem (2013) 0.84

Characterization of the overall rotational diffusion of a protein from 15N relaxation measurements and hydrodynamic calculations. Methods Mol Biol (2004) 0.84

High relaxivity supramolecular adducts between human-liver fatty-acid-binding protein and amphiphilic Gd(III) complexes: structural basis for the design of intracellular targeting MRI probes. Chemistry (2012) 0.81

Unexpected trypsin cleavage at ubiquitinated lysines. Anal Chem (2015) 0.81

Preparing to read the ubiquitin code: a middle-out strategy for characterization of all lysine-linked diubiquitins. J Mass Spectrom (2014) 0.81

Reversible post-translational carboxylation modulates the enzymatic activity of N-acetyl-L-ornithine transcarbamylase. Biochemistry (2010) 0.81

Fast approximations of the rotational diffusion tensor and their application to structural assembly of molecular complexes. Proteins (2011) 0.80

Evidence for cooperative and domain-specific binding of the signal transducing adaptor molecule 2 (STAM2) to Lys63-linked diubiquitin. J Biol Chem (2012) 0.80

Polyhydroxylated [60]fullerene binds specifically to functional recognition sites on a monomeric and a dimeric ubiquitin. Nanoscale (2015) 0.79

Information content of long-range NMR data for the characterization of conformational heterogeneity. J Biomol NMR (2015) 0.78

Nonenzymatic rubylation and ubiquitination of proteins for structural and functional studies. Angew Chem Int Ed Engl (2014) 0.78

Modifying the vicinity of the isopeptide bond to reveal differential behavior of ubiquitin chains with interacting proteins: organic chemistry applied to synthetic proteins. Angew Chem Int Ed Engl (2013) 0.77

1H, 13C, and 15N resonance assignment of the ubiquitin-like domain from Dsk2p. Biomol NMR Assign (2008) 0.76

Long-lived states to monitor protein unfolding by proton NMR. Chemphyschem (2011) 0.75

Probing the Binding Modes of a Multi-Domain Protein to Lipid-Based Nanoparticles by Relaxation-Based NMR. J Phys Chem Lett (2017) 0.75