Description
Neddylation is the post-translational protein modification that is most closely related to
ubiquitination. The Ubiquitin-like protein NEDD8 is mostly studied for its role in activating
the Cullin-RING E3 Ubiquitin ligases, however little is known about other NEDD8 targets.
We developed serial NEDD8-Ubiquitin Substrate Profiling (sNUSP), a method that
employs Nedd8-R74K knock-in cells allowing discrimination of endogenous NEDD8- and
Ubiquitin-modification sites by mass spectrometry after Lys-C digestion and K-GG-
peptide enrichment. Using sNUSP, we identified 607 neddylation sites dynamically
regulated by the neddylation inhibitor MLN4924 and the de-neddylating enzyme
NEDP1/SENP8. Among the candidates, we characterized lysine 112 (K112) of the Actin
regulator Cofilin as a novel neddylation event. Global inhibition of neddylation in
developing neurons leads to cytoskeletal defects, altered Actin dynamics and neurite
growth impairments and site-specific neddylation of Cofilin at K112 regulates neurite
outgrowth. These data show that Cofilin neddylation contributes to the regulation of
neuronal Actin dynamics.
[doi:10.25345/C5WD5M]
[dataset license: CC0 1.0 Universal (CC0 1.0)]
Keywords: neddylation ; nedd8 ; senp8 ; cofilin ; ubiquitin ; MLN4924 ; nedp1
Contact
Principal Investigators:
(in alphabetical order)
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Donald Kirkpatrick, Genentech, United States
erik verschueren, Genentech, United States
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erikv
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Number of distinct conditions across all analyses (original submission and reanalyses)
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Distinct condition labels are counted across all files submitted in the "Metadata" category
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"N/A" means no results of this type were submitted.
Number of distinct biological replicates across all analyses (original submission and reanalyses)
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Distinct replicate labels are counted across all files submitted in the "Metadata" category
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"N/A" means no results of this type were submitted.
Number of distinct technical replicates across all analyses (original submission and reanalyses)
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The technical replicate count is defined as the maximum number of times any one distinct
combination of condition and biological replicate was analyzed across all files submitted in the
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"N/A" means no results of this type were submitted.
Originally identified proteins that were automatically
remapped by MassIVE to proteins in the
SwissProt
human reference database.
"N/A" means no results of this type were submitted.
Number of distinct protein accessions reported across all analyses (original submission and
reanalyses) associated with this dataset.
"N/A" means no results of this type were submitted.
Number of distinct unmodified peptide sequences reported across all analyses (original
submission and reanalyses) associated with this dataset.
"N/A" means no results of this type were submitted.
Number of distinct peptide sequences (including modified variants or peptidoforms) reported
across all analyses (original submission and reanalyses) associated with this dataset.
"N/A" means no results of this type were submitted.
Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all
analyses (original submission and reanalyses) associated with this dataset.
"N/A" means no results of this type were submitted.
Number of distinct proteins quantified across all analyses (original submission and reanalyses)
associated with this dataset.
Distinct protein accessions are counted across all files submitted in the "Statistical Analysis
of Quantified Analytes" category having a "Protein" column in this dataset.
"N/A" means no results of this type were submitted.
Number of distinct proteins found to be differentially abundant in at least one comparison
across all analyses (original submission and reanalyses) associated with this dataset.
A protein is differentially abundant if its change in abundance across conditions is found
to be statistically significant with an adjusted p-value <= 0.05 and lists no issues associated
with statistical tests for differential abundance.
Distinct protein accessions are counted across all files submitted in the "Statistical Analysis
of Quantified Analytes" category having a "Protein" column in this dataset.
"N/A" means no results of this type were submitted.
This dataset may not contain all raw spectra data as originally deposited in PRIDE.
It has been imported to MassIVE for reanalysis purposes, so its spectra data here may
consist solely of processed peak lists suitable for reanalysis with most software.