Post-translational modification by SUMO is a highly conserved pathway in eukaryotes that plays very important regulatory roles in many cellular processes. Deregulation of the SUMO pathway contributes to the development and progression of many diseases including cancer. Therefore, identifying additional SUMO substrates and studying how their cellular and biological functions are regulated by sumoylation should provide new insights. Our studies showed that sumoylation activity was significant in Xenopus egg extracts, and that a high level of sumoylation was associated with sperm chromatin when SUMO was incubated with Xenopus egg extracts. By isolating SUMOconjugated substrates using His-tagged SUMO1 or SUMO2 proteins under denaturing conditions, we identified 346 proteins by mass spectrometry analysis that were not present in control pull-downs. Among them, 167 proteins were identified from interphase egg extracts, 86 proteins from mitotic phase egg extracts, and 93 proteins from both. Thirty-three proteins were pulled down by SUMO1, 85 proteins by SUMO2, and 228 proteins by both. We validated the sumoylation of five candidates, CKB, ATXN10, BTF3, HABP4, and BZW1, by co-transfecting them along with SUMO in HEK293T cells. Gene ontology analysis showed that SUMO substrates identified in this study were involved in diverse biological processes. Additionally, SUMO substrates identified from different cell cycle stages or pulled down by different SUMO homologs were enriched for distinct cellular components and functional categories. Our results comprehensively profile the sumoylation occurring in the Xenopus egg extract system. Molecular & Cellular Proteomics 13: 10.1074/ mcp.M113.035626, 1659-1675, 2014.
Post-translational modification by small ubiquitin-like modifier (SUMO)1 is highly conserved from yeast to human. There are three well-characterized SUMO proteins in human: SUMO1, 2, and 3. SUMO2 and SUMO3 share about 92% identity and have no apparent functional differences. However, the identity between SUMO2/3 and SUMO1 is only 45%. SUMO1 has different dynamics and a distinct profile of target proteins from SUMO2/3, and some proteins with SUMOinteracting motifs (SIMs) distinguish SUMO1 from SUMO2/3. Therefore, protein substrates modified by different SUMO proteins may exert different functions (1).Sumoylation is a multi-step enzymatic process. The SUMO precursor protein is initially processed at the C terminus by SUMO-specific proteases (SENPs) to generate mature SUMO with a C-terminal Gly-Gly motif. Then, an ATP-dependent activating E1 enzyme (a heterodimer of SAE1 and SAE2) and a conjugating enzyme E2 (UBC9) link sequentially to SUMO by forming a thioester bond between SUMO's C-terminal Gly and Cys residues in the active sites of these enzymes. In an E3 ligase dependent or independent manner, SUMO is conjugated through the C-terminal Gly-Gly motif onto the -amino group of specific Lys residues of substrates forming an isopeptide bond. The substrates can be modified by a single SUMO, multiple SUMOs at several Lys r...