| 1997 |
NEDD8 is a ubiquitin-like protein that is conjugated to other proteins in a manner analogous to ubiquitination; Gly-76 is required for conjugation, the C-terminus is processed, and NEDD8 is enriched in the nucleus relative to ubiquitin. |
Mutational analysis, immunocytochemistry, Western blot of HA-tagged NEDD8 in COS cells |
The Journal of biological chemistry |
High |
9353319
|
| 1998 |
NEDD8 is activated by an E1-like heterodimeric complex (APP-BP1/hUba3) and then transferred to hUbc12 (E2); the major target modified by NEDD8 is Cul-4A. |
Biochemical reconstitution, identification of novel ligating pathway in cell extracts and purified system |
Genes & development |
High |
9694792
|
| 1998 |
UCH-L3 binds NEDD8 (and ubiquitin but not SUMO) via direct interaction and cleaves the C-terminus of NEDD8 in vitro, functioning as a NEDD8 C-terminal hydrolase. |
Yeast two-hybrid screen, GST pull-down, in vitro cleavage assay with recombinant UCH-L3 |
Biochemical and biophysical research communications |
High |
9790970
|
| 1999 |
Human UBA3 (E1 catalytic subunit) specifically binds NEDD8 but not ubiquitin or SUMO, forms a thioester intermediate with NEDD8 in the presence of APP-BP1, and together with hUBC12 (E2) constitutes the NEDD8 activating and conjugating enzymes. |
GST pull-down, thioester formation assay, cDNA cloning and biochemical characterization |
The Journal of biological chemistry |
High |
10207026
|
| 1999 |
All six members of the human cullin family (Cul-1, -2, -3, -4A, -4B, -5) are covalently modified by NEDD8 via the APP-BP1/hUba3 and hUbc12 pathway. |
In vitro neddylation in rabbit reticulocyte lysates, Western blot |
Oncogene |
High |
10597293
|
| 2000 |
NEDD8 conjugation to CUL1 at Lys-720 via the ROC1/Rbx1 E3 and the APP-BP1/Uba3/Ubc12 system markedly enhances ROC1-CUL1 ubiquitin polymerization activity; K720R mutation abolishes neddylation and CUL1 ubiquitin ligase activation. |
In vitro reconstitution with purified components, site-directed mutagenesis (K720R), ubiquitin polymerization assay |
The Journal of biological chemistry |
High |
10921923
|
| 2000 |
The NEDD8 conjugation pathway is required for p27Kip1 ubiquitination by SCF(Skp2); dominant-negative UBC12(C111S) blocks p27 ubiquitination and degradation in cell extracts. |
Cell extract ubiquitination assay, dominant-negative mutant of Ubc12, reconstitution with recombinant SCF(Skp2) |
Proceedings of the National Academy of Sciences of the United States of America |
High |
10781063
|
| 2000 |
UBC12(C111S) dominant-negative mutant sequesters NEDD8 by forming a stable UBC12-NEDD8 conjugate, thereby inhibiting NEDD8 transfer to cullins and other targets; UBC12 overexpression inhibits cell growth. |
Dominant-negative expression, co-immunoprecipitation, cell growth assay |
The Journal of biological chemistry |
Medium |
10828074
|
| 2000 |
ROC1 binding to the conserved C-terminal sequence of CUL1 promotes nuclear accumulation of CUL1, which is a prerequisite for NEDD8 modification in vivo; NEDD8 modification of CUL1 then stimulates IκBα ubiquitin ligase activity. |
Mutagenesis of CUL1 C-terminus, subcellular fractionation, in vivo and in vitro neddylation assays, ubiquitin ligase activity assay |
Molecular and cellular biology |
High |
11027288
|
| 2001 |
NUB1 contains a ubiquitin-like domain, binds NEDD8 and proteasome subunit S5a/RPN10, and acts as an adaptor to recruit NEDD8 and its conjugates to the 26S proteasome for degradation. |
GST pull-down, co-immunoprecipitation, proteasome inhibitor experiments |
The Journal of biological chemistry |
Medium |
11585840
|
| 2002 |
Ongoing neddylation is required for VHL-elongin C-Cul2 (VEC) complex ubiquitin ligase function in vitro and for degradation of SCF and VEC substrates in mammalian cells, demonstrating that NEDD8 regulates at least two cullin-based E3 subclasses. |
In vitro ubiquitylation assay, dominant-negative Ubc12 in mammalian cells, substrate degradation assay |
EMBO reports |
High |
11818338
|
| 2002 |
The NEDD8 pathway (E1, E2, NEDD8-modified Cul1) is required for SCF(β-TrCP)-mediated ubiquitination and processing of NF-κB precursor p105; a non-neddylatable Cul1 mutant cannot support p105 ubiquitination. |
Cell-free ubiquitination reconstitution, dominant-negative UBC12, Cul1 K→R mutant |
The Journal of biological chemistry |
High |
11953428
|
| 2002 |
NEDD8 conjugation pathway negatively regulates cortical contractility during pronuclear migration and cytokinesis in C. elegans, and is required to negatively regulate katanin (a microtubule-severing complex), permitting assembly of the mitotic spindle during meiosis-to-mitosis transition. |
C. elegans genetic analysis, live imaging of embryogenesis, epistasis with katanin mutants |
Science (New York, N.Y.) |
High |
11847342
|
| 2003 |
Crystal structure of the heterodimeric APPBP1-UBA3 (NEDD8 E1) reveals an adenylation domain, a catalytic cysteine domain, and a ubiquitin-fold domain for E2 recognition; mutational analysis of each domain defines their roles in the sequential E1 reaction cycle. |
Crystal structure determination, mutational analysis, biochemical assays of each E1 activity |
Nature |
High |
12646924
|
| 2003 |
ROC1/Rbx1 functions as a NEDD8 E3 ligase for CUL1: it binds Ubc12 through its RING finger (RING mutant H77A abolishes Ubc12 binding) and promotes CUL1 neddylation in a reconstituted in vitro system; neddylated CUL1 is subsequently ubiquitinated and degraded more rapidly. |
In vitro neddylation reconstitution with bacterially expressed Cul1/Roc1 complex, RING mutant analysis, in vivo stability assay |
Biochemical and biophysical research communications |
High |
12565873
|
| 2003 |
Human NEDD8-activating enzyme AppBp1-Uba3 follows a pseudo-ordered mechanism (ATP leading substrate, NEDD8 trailing), forms a stoichiometric ternary complex with NEDD8-adenylate and Uba3-NEDD8 thioester; Ala-72 of NEDD8 is a critical specificity determinant distinguishing NEDD8 from ubiquitin for the E1. |
Purified human AppBp1-Uba3 from erythrocytes, kinetic analysis, radiolabeled substrate assays, A72L mutant of NEDD8 |
The Journal of biological chemistry |
High |
12740388
|
| 2004 |
Mdm2 RING finger E3 promotes NEDD8 modification of p53, inhibiting p53 transcriptional activity; using a temperature-sensitive NEDD8 conjugation mutant cell line and a non-neddylatable p53 mutant (3NKR), Mdm2-dependent NEDDylation of p53 was shown to specifically suppress p53 transcriptional function. |
Temperature-sensitive NEDD8 pathway cell line (TS-41), non-neddylatable p53 mutant (3NKR), transcriptional reporter assays, co-immunoprecipitation |
Cell |
High |
15242646
|
| 2005 |
Crystal structure of NEDP1 (NEDD8-specific cysteine protease) alone and in transition-state complex with NEDD8 reveals it belongs to the Ulp family; NEDD8 binding induces conformational change in a flexible loop that locks the NEDD8 C-terminus in an extended β-structure for catalysis; a single residue difference between NEDD8 and ubiquitin C-termini underlies NEDP1 specificity. |
Crystal structure of NEDP1 and NEDP1-NEDD8 complex, mutagenesis, in vivo deNEDDylation of p53 assay |
The EMBO journal |
High |
15775960
|
| 2006 |
c-Cbl ubiquitin ligase mediates Nedd8 modification of activated EGFR at multiple lysine residues in the kinase domain; EGFR neddylation enhances subsequent ubiquitylation and promotes EGFR sorting for lysosomal degradation. |
Co-immunoprecipitation, mutational analysis of EGFR lysines, EGFR trafficking assays |
The Journal of biological chemistry |
Medium |
16735510
|
| 2006 |
Mdm2 promotes NEDD8 modification of TAp73 but not ΔNp73; neddylated TAp73 preferentially localizes to the cytoplasm and has reduced transactivation activity; NEDP1 co-expression reverses TAp73 neddylation and restores its activity. |
Co-immunoprecipitation, subcellular fractionation, transcriptional reporter assay, NEDP1 deconjugation |
The Journal of biological chemistry |
Medium |
16980297
|
| 2008 |
Crystal structure of NEDD8~Cul5(ctd)-Rbx1 and SAXS of NEDD8~Cul1(ctd)-Rbx1 reveal striking conformational rearrangements upon neddylation: the cullin WHB subdomain and Rbx1 RING are dramatically reoriented, eliminating the CAND1-binding site and creating multiple catalytic geometries for associated E2; this structural malleability is required for both CRL neddylation and subsequent ubiquitination. |
Crystal structure, SAXS, biochemical analysis of CAND1 binding and ubiquitination activity |
Cell |
High |
18805092
|
| 2008 |
LC-MS/MS proteomic analysis of GST-NEDD8 affinity-purified proteins identified 496 associated proteins including all eight cullin family members; mass spectrometry revealed NEDD8 chain formation in vivo at K11, K22, K48, and K60, and in vitro at K22 and K48. |
Affinity purification (GST-NEDD8), LC-MS/MS proteomics, MS/MS identification of neddylation sites |
Journal of proteome research |
High |
18247557
|
| 2009 |
UBE2F is a second NEDD8-conjugating E2 enzyme; UBE2M/RBX1 and UBE2F/RBX2 form distinct E2-RING pairs with different cullin specificities, establishing hierarchical expansion of the NEDD8 conjugation system for selective CRL activation. |
Biochemical in vitro neddylation assays, structural analysis of E1-E2 interactions, in vivo neddylation specificity assays |
Molecular cell |
High |
19250909
|
| 2009 |
MLN4924 is a potent and selective inhibitor of NEDD8-activating enzyme (NAE) that disrupts cullin-RING ligase-mediated protein turnover, leading to apoptotic cell death in human tumor cells by deregulating S-phase DNA synthesis. |
Biochemical NAE inhibition assay, cell-based ubiquitination assays, xenograft tumor models |
Nature |
High |
19360080
|
| 2009 |
Poly-NEDD8 chain is built on the catalytic cysteine of Ubc12 in vitro; ROC1 is required for transfer of poly-NEDD8 from Ubc12 to Cul1 but not for poly-NEDD8 chain assembly itself; ROC1 RING mutant defective for ubiquitin ligase activity enhances poly-NEDD8 chain formation. |
In vitro reconstituted NEDD8 conjugation system, ROC1 mutant analysis |
Biochemical and biophysical research communications |
Medium |
19245792
|
| 2010 |
MLN4924 is a mechanism-based inhibitor of NAE; it forms a covalent NEDD8-MLN4924 adduct in situ, catalyzed by NAE, that mimics the NEDD8-adenylate intermediate and is trapped in the active site, blocking enzyme activity. |
In vitro NAE assay, mass spectrometry characterization of covalent adduct, structural analysis |
Molecular cell |
High |
20129059
|
| 2010 |
Bacterial effector CHBP deamidates Gln40 of NEDD8 (and ubiquitin) using a papain-like fold, abolishing the activity of neddylated CRL ubiquitin ligases and preventing ubiquitin-dependent degradation of multiple CRL substrates. |
In vitro deamidation assay, mass spectrometry, in vitro CRL ubiquitylation assay, infection cell biology |
Science (New York, N.Y.) |
High |
20688984
|
| 2010 |
NEDD8 conjugation to cullins 1, 2, 3, 4A, and 4B is required for Cif (bacterial effector) to interact with and inhibit CRL activity; Cif directly inhibits the neddylated CUL1-associated ubiquitin ligase activity in vitro and modulates CRL substrate half-lives in cells. |
Yeast two-hybrid, co-immunoprecipitation, in vitro ubiquitylation assay, co-compartmentalization imaging |
PLoS pathogens |
Medium |
20941356
|
| 2010 |
The ubiquitin E1 enzyme Ube1 mediates NEDD8 conjugation under stress conditions (proteasome inhibition, heat shock, oxidative stress) independent of the dedicated NEDD8 E1; this is triggered by depletion of free ubiquitin and results in mixed NEDD8-ubiquitin chains; NEDDylation of p53 under stress is mainly mediated through Ube1. |
siRNA knockdown of NEDD8 E1 vs Ube1, mass spectrometry of mixed chains, stress induction experiments, NEDD8 proteome analysis |
Cell cycle (Georgetown, Tex.) |
High |
22370482
|
| 2010 |
MLN4924 stabilizes Cdt1 (a CRL substrate) in S-phase cells, which is critical for triggering DNA rereplication, checkpoint activation, and apoptosis/senescence in cancer cells; Cdt1 knockdown suppresses rereplication, confirming Cdt1 accumulation as the mediating event. |
MLN4924 treatment, siRNA knockdown of Cdt1 and relevant cullins, cell cycle analysis, DNA damage assays |
Cancer research |
High |
21159650
|
| 2010 |
HIF-1α and HIF-2α are covalently modified by NEDD8; NEDD8 stabilizes HIF-1α even in normoxia through a reactive oxygen species-dependent mechanism distinct from the PHD/VHL oxygen-sensing pathway. |
APPBP1 knockdown, ectopic NEDD8 expression, co-immunoprecipitation, antioxidant treatment, VHL/p53-null cell lines |
The Journal of biological chemistry |
Medium |
21193393
|
| 2011 |
Drosophila and human IAP (inhibitor of apoptosis) proteins function as NEDD8 E3 ligases targeting effector caspases for neddylation and inactivation; deneddylase DEN1/SENP8 reverses this modification, restoring caspase activity and enabling apoptosis. |
Systematic in vivo RNAi screen in Drosophila, genetic ablation of DEN1, in vitro neddylation assays, caspase activity assays |
Molecular cell |
High |
21145488
|
| 2012 |
The p97 cofactor UBXD7 mediates the p97-CRL interaction through its conserved ubiquitin-interacting motif (UIM), and UBXD7/Ubx5 associate only with active, NEDD8-modified cullins; disruption of the UIM impedes CRL substrate degradation. |
Co-immunoprecipitation, UIM mutant analysis, substrate degradation assay in yeast (Ubx5) and human cells |
Nature structural & molecular biology |
High |
22466964
|
| 2012 |
NEDD8 overexpression causes erroneous conjugation of NEDD8 to ubiquitin substrates (p53, Caspase 7, HIF1α) via the ubiquitin pathway, demonstrating cross-talk between pathways when NEDD8 levels exceed ubiquitin. |
NEDD8 overexpression, Western blot, comparison with ubiquitin pathway targets |
Journal of molecular biology |
Medium |
22608973
|
| 2012 |
Crystal structures of CHBP-ubiquitin and CHBP-NEDD8 complexes reveal that Ub/NEDD8 are cradled in a large cleft with four contact surfaces; recognition pattern resembles the E1 activation enzyme; Gln-31/Glu-31 difference between Ub/NEDD8 determines CHBP substrate preference for NEDD8. |
Crystal structures of CHBP complexes, molecular dynamics simulation, mutagenesis |
Proceedings of the National Academy of Sciences of the United States of America |
High |
23175788
|
| 2012 |
Crystal structures of two Cif/NEDD8 complexes define the conserved molecular interface; an 'occluding loop' forces a conformational change in the NEDD8 C-terminus to gate access to Gln40 for deamidation. |
Crystal structure determination, mutagenesis of interface residues, native PAGE activity assay |
Proceedings of the National Academy of Sciences of the United States of America |
High |
22691497
|
| 2012 |
UBE2F NEDD8-conjugating enzyme (together with RBX2) is required for HIV Vif-mediated degradation of the restriction factor APOBEC3G via CUL5 neddylation; NMR mapping and mutagenesis define specificity determinants of the UBE2F NEDD8 cascade. |
siRNA knockdown, MLN4924 pharmacological inhibition, NMR chemical shift mapping, mutagenesis |
PLoS pathogens |
High |
23300442
|
| 2012 |
A single A171T mutation in UBA3 (NAE subunit) reduces MLN4924 affinity while increasing NEDD8 activation at physiological ATP concentrations, identifying A171T as a gatekeeper residue for NAE inhibition by MLN4924. |
Drug resistance selection in HCT116 cells, sequencing, biochemical characterization of UBA3 A171T, rescue by expression of mutant |
Cell reports |
High |
22832224
|
| 2014 |
Smurf1 (HECT E3 ligase) is neddylated on multiple lysine residues; autoneddylation requires the active site C426 in the HECT N-lobe, is mediated by Nedd8 and Ubc12, and potently enhances ubiquitin E2 recruitment and Smurf1 ubiquitin ligase activity. |
Co-immunoprecipitation of Smurf1 with Nedd8/Ubc12, thioester intermediate detection, mutagenesis of C426, in vitro ubiquitin ligase activity assay |
Nature communications |
High |
24821572
|
| 2016 |
SENP8/DEN1 is the protease that counteracts Ubc12 auto-neddylation; loss of SENP8 leads to aberrant neddylation of Ubc12 and other NEDD8 conjugation pathway components, causing accumulation of CRL substrates and defective cell cycle progression. |
Deconjugation-resistant NEDD8 mutant, SENP8 knockout cells, identification of Ubc12 auto-neddylation sites, cell cycle analysis |
eLife |
High |
28475037
|
| 2016 |
DCN-like (DCNL) proteins form stable complexes with CAND1 and cullins that can only be neddylated in the presence of a substrate adaptor; all DCNLs interact with most cullin subtypes but show subcellular localization differences that determine their functional specificity. |
Co-immunoprecipitation of DCNL-CAND1-cullin complexes, neddylation assay requiring adaptor, subcellular localization studies |
Journal of cell science |
Medium |
26906416
|
| 2019 |
Upon DNA damage, induction of NEDP1 restricts NEDD8 chain formation (mainly K11/K48 chains); mono-NEDD8 (vs. NEDD8 chains) binds HSP70 and stimulates its ATPase activity in vitro, promoting APAF1 oligomerization and apoptosis. |
In vitro HSP70 ATPase assay with mono-NEDD8 vs. chains, APAF1 oligomerization assay, NEDP1 induction studies, MS characterization of chain types |
Cell reports |
High |
31577950
|
| 2019 |
Unanchored NEDD8 trimers accumulate upon H2O2-induced NEDP1 inhibition and specifically bind the second zinc finger domain of PARP-1, attenuating its activation; NEDD8 trimers are additionally acetylated, and deacetylase overexpression reduces their PARP-1 binding. |
In vitro PARP-1 activation assay with NEDD8 chains, pulldown identifying zinc finger domain, MS detection of NEDD8 acetylation, NEDP1 deletion cells |
The EMBO journal |
High |
30804002
|
| 2021 |
NEDD8 can be phosphorylated at S65 (same site as ubiquitin); S65-phosphorylated NEDD8 allosterically activates Parkin similarly to phospho-ubiquitin, but has a distinct protein interactome including preferential binding to HSP70 family members, stimulating HSP70 ATPase activity more than unmodified NEDD8. |
In vitro phosphorylation, NMR structural dynamics, Parkin activation assay, quantitative interactome by MS, HSP70 ATPase assay |
Nature communications |
High |
34642328
|
| 2021 |
CUL5-linked NEDD8 activates ARIH2 allosterically rather than by direct recruitment: NEDD8 uniquely contacts CUL5 covalently, inducing structural rearrangements that unmask cryptic ARIH2-binding sites; this is mechanistically distinct from CUL1-linked NEDD8 directly recruiting ARIH1. |
Cryo-EM/crystal structures of ARIH2-neddylated CUL5-RBX2, biochemical ARIH2 activation assay, structural comparison with ARIH1-CUL1 complexes |
Nature chemical biology |
High |
34518685
|
| 2021 |
Proteome-wide identification of 1,101 unique NEDDylation sites in 620 proteins using NEDD8 R74K mutant with anti-diGly antibodies reveals distinct proteomes for canonical NEDDylation (spliceosome/DNA replication) and atypical/stress-induced NEDDylation (ribosome/proteasome); NEDD8-SUMO-2 chains form upon proteotoxic stress through NEDDylation of SUMO-2 K11. |
NEDD8 R74K mutant, anti-diGly antibody enrichment, mass spectrometry, bioinformatics |
Cell reports |
High |
33472076
|