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Kinase Fusion Gene:ULK3_LIMS2 |
Kinase Fusion Protein Summary |
 Kinase Fusion gene summary |
| Kinase Fusion partner gene information | Kinase Fusion gene name: ULK3_LIMS2 | KinaseFusionDB ID: KFG7001 | FusionGDB2.0 ID: KFG7001 | Hgene | Tgene | Gene symbol | ULK3 | LIMS2 | Gene ID | 25989 | 55679 | |
| Gene name | unc-51 like kinase 3 | LIM zinc finger domain containing 2 | ||||||||||
| Synonyms | - | LGMD2W|MDRCMTT|PINCH-2|PINCH2 | ||||||||||
| Cytomap | 15q24.1 | 2q14.3 | ||||||||||
| Type of gene | protein-coding | protein-coding | ||||||||||
| Description | serine/threonine-protein kinase ULK3 | LIM and senescent cell antigen-like-containing domain protein 2ILK-binding proteinLIM and senescent cell antigen-like domains 2LIM-type zinc finger domains 2particularly interesting new Cys-His protein 2 | ||||||||||
| Modification date | 20240403 | 20240403 | ||||||||||
| UniProtAcc | Q6PHR2 | Q7Z4I7 | ||||||||||
| Ensembl transtripts involved in fusion gene | ENST ids | ENST00000440863, ENST00000569437, ENST00000568667, | ENST00000494613, ENST00000409286, ENST00000409754, ENST00000324938, ENST00000409455, ENST00000355119, ENST00000409808, ENST00000410011, ENST00000410038, ENST00000545738, ENST00000409254, | |||||||||
| Context (manual curation of fusion genes in KinaseFusionDB) | PubMed: ULK3 [Title/Abstract] AND LIMS2 [Title/Abstract] AND fusion [Title/Abstract] | |||||||||||
| Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | ||||||||||||
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | ULK3 | GO:0007224 | smoothened signaling pathway | 31279575 |
| Hgene | ULK3 | GO:0045879 | negative regulation of smoothened signaling pathway | 20643644 |
| Hgene | ULK3 | GO:0045880 | positive regulation of smoothened signaling pathway | 19878745|20643644 |
| Hgene | ULK3 | GO:0046777 | protein autophosphorylation | 19878745|20643644 |
| Kinase Fusion gene breakpoints across ULK3 (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
| Kinase Fusion gene breakpoints across LIMS2 (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Kinase Fusion Gene Sample Information |
| Kinase Fusion gene information. |
| Kinase Fusion gene information from four resources (ChiTars 5.0, ChimerDB 4.0, COSMIC, and CCLE) * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| Source | Sample | Hgene | Hchr | Hbp | Tgene | Tchr | Tbp |
| CCLE | WM-88 | ULK3 | chr15 | 75128761 | LIMS2 | chr2 | 128399727 |
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Kinase Fusion ORF Analysis |
| Kinase Fusion information from ORFfinder translation from full-length transcript sequence from KinaseFusionDB. |
| Henst | Tenst | Hgene | Hchr | Hbp | Tgene | Tchr | Tbp | Seq length (transcript) | Seq length (amino acids) |
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Kinase Fusion Amino Acid Sequences |
| For individual full-length fusion transcript sequence from KinaseFusionDB, we ran ORFfinder and chose the longest ORF among the all predicted ones. |
| >Henst_Tenst_Hgene_Hchr_Hbp_Tgene_Tchr_Tbp_length(fusion AA)_AAseq |
Multiple Sequence Alignment of All Fusion Protein Isoforms |
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Kinase Fusion Protein Functional Features |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:/:) - FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels. - How to search 1. Put your fusion gene symbol. 2. Press the tab key until there will be shown the breakpoint information filled. 4. Go down and press 'Search' tab twice. 4. Go down to have the hyperlink of the search result. 5. Click the hyperlink. 6. See the FGviewer result for your fusion gene. |
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| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| ULK3 | LIMS2 |
| FUNCTION: Serine/threonine protein kinase that acts as a regulator of Sonic hedgehog (SHH) signaling and autophagy. Acts as a negative regulator of SHH signaling in the absence of SHH ligand: interacts with SUFU, thereby inactivating the protein kinase activity and preventing phosphorylation of GLI proteins (GLI1, GLI2 and/or GLI3). Positively regulates SHH signaling in the presence of SHH: dissociates from SUFU, autophosphorylates and mediates phosphorylation of GLI2, activating it and promoting its nuclear translocation. Phosphorylates in vitro GLI2, as well as GLI1 and GLI3, although less efficiently. Also acts as a regulator of autophagy: following cellular senescence, able to induce autophagy. {ECO:0000269|PubMed:19279323, ECO:0000269|PubMed:19878745, ECO:0000269|PubMed:20643644}. | FUNCTION: Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. Plays a role in modulating cell spreading and migration. {ECO:0000269|PubMed:12167643}. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at * Minus value of BPloci means that the break pointn is located before the CDS. |
| - Retained domain in the 5'-partner of fusion protein (protein functional feature from UniProt). |
| Partner | Hgeneene | Hbp | Tgeneene | Tbp | ENST | BPexon | TotalExon | Protein feature loci | BPloci | TotalLen | Feature | Note |
| - Retained domain in the 3'-partner of fusion protein (protein functional feature from UniProt). |
| Partner | Hgeneene | Hbp | Tgeneene | Tbp | ENST | BPexon | TotalExon | Protein feature loci | BPloci | TotalLen | Feature | Note |
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Kinase-Substrate Information of ULK3_LIMS2 |
| Phosphorylation target of the kinase (phosphosite, 03-17-2024) |
| Kinase | Kinase UniProt Acc | Kinase species | Substrate | Substrate UniProt Acc | Substrate phosphorylated residues | Substrate phosphorylated sites (+/-7AA) | Domain |
| ULK3 | Q6PHR2 | human | ULK3 | Q6PHR2 | S300 | KKDQEGDsAAALsLY | MIT |
| ULK3 | Q6PHR2 | human | ULK3 | Q6PHR2 | S350 | ELkAIVSsSNQALLR | |
| ULK3 | Q6PHR2 | human | ULK3 | Q6PHR2 | S464 | DkEGLSEsVRSSCTL | |
| ULK3 | Q6PHR2 | human | ULK3 | Q6PHR2 | S384 | LAALEVAsAAMAKEE | MIT |
| ULK3 | Q6PHR2 | human | PIK3C3 | Q8NEB9 | S249 | ESsPILTsFELVKVP |
| Biological Network Integration of This Kinase and Substrates (GeneMANIA website) |
| Enriched GO biological processes of the phosphorylation target genes of the kinase |
| Kinase | GOID | GO term | P.adjust |
| ULK3 | ID | Description | 0.00e+00 |
| ULK3 | GO:0061912 | selective autophagy | 1.01e-03 |
| ULK3 | GO:0000045 | autophagosome assembly | 1.01e-03 |
| ULK3 | GO:1905037 | autophagosome organization | 1.01e-03 |
| ULK3 | GO:0042594 | response to starvation | 2.23e-03 |
| ULK3 | GO:0007033 | vacuole organization | 2.23e-03 |
| ULK3 | GO:0016236 | macroautophagy | 3.73e-03 |
| ULK3 | GO:0010506 | regulation of autophagy | 3.73e-03 |
| ULK3 | GO:0031667 | response to nutrient levels | 5.69e-03 |
| ULK3 | GO:0022411 | cellular component disassembly | 5.69e-03 |
| ULK3 | GO:0030242 | autophagy of peroxisome | 6.53e-03 |
| ULK3 | GO:0034727 | piecemeal microautophagy of the nucleus | 6.53e-03 |
| ULK3 | GO:0044829 | positive regulation by host of viral genome replication | 6.53e-03 |
| ULK3 | GO:0016237 | lysosomal microautophagy | 7.84e-03 |
| ULK3 | GO:0072537 | fibroblast activation | 8.36e-03 |
| ULK3 | GO:0034497 | protein localization to phagophore assembly site | 8.36e-03 |
| ULK3 | GO:0061709 | reticulophagy | 8.76e-03 |
| ULK3 | GO:0044804 | nucleophagy | 8.76e-03 |
| ULK3 | GO:0044794 | positive regulation by host of viral process | 9.08e-03 |
| ULK3 | GO:0036092 | phosphatidylinositol-3-phosphate biosynthetic process | 9.08e-03 |
| ULK3 | GO:0048015 | phosphatidylinositol-mediated signaling | 1.01e-02 |
| ULK3 | GO:0044827 | modulation by host of viral genome replication | 1.01e-02 |
| ULK3 | GO:0006622 | protein targeting to lysosome | 1.16e-02 |
| ULK3 | GO:0045879 | negative regulation of smoothened signaling pathway | 1.16e-02 |
| ULK3 | GO:0045880 | positive regulation of smoothened signaling pathway | 1.21e-02 |
| ULK3 | GO:0045022 | early endosome to late endosome transport | 1.35e-02 |
| ULK3 | GO:0006623 | protein targeting to vacuole | 1.35e-02 |
| ULK3 | GO:0098927 | vesicle-mediated transport between endosomal compartments | 1.35e-02 |
| ULK3 | GO:0042149 | cellular response to glucose starvation | 1.35e-02 |
| ULK3 | GO:0044788 | modulation by host of viral process | 1.35e-02 |
| ULK3 | GO:0097352 | autophagosome maturation | 1.52e-02 |
| ULK3 | GO:0061462 | protein localization to lysosome | 1.52e-02 |
| ULK3 | GO:0072666 | establishment of protein localization to vacuole | 1.57e-02 |
| ULK3 | GO:0046854 | phosphatidylinositol phosphate biosynthetic process | 1.57e-02 |
| ULK3 | GO:0008589 | regulation of smoothened signaling pathway | 1.87e-02 |
| ULK3 | GO:0051851 | modulation by host of symbiont process | 1.87e-02 |
| ULK3 | GO:0072665 | protein localization to vacuole | 1.87e-02 |
| ULK3 | GO:0006497 | protein lipidation | 1.87e-02 |
| ULK3 | GO:0032465 | regulation of cytokinesis | 1.87e-02 |
| ULK3 | GO:0042158 | lipoprotein biosynthetic process | 1.87e-02 |
| ULK3 | GO:0000422 | autophagy of mitochondrion | 1.87e-02 |
| ULK3 | GO:0061726 | mitochondrion disassembly | 1.87e-02 |
| ULK3 | GO:0090398 | cellular senescence | 2.05e-02 |
| ULK3 | GO:0051702 | biological process involved in interaction with symbiont | 2.20e-02 |
| ULK3 | GO:0006661 | phosphatidylinositol biosynthetic process | 2.24e-02 |
| ULK3 | GO:0019079 | viral genome replication | 2.24e-02 |
| ULK3 | GO:0007041 | lysosomal transport | 2.24e-02 |
| ULK3 | GO:0042157 | lipoprotein metabolic process | 2.24e-02 |
| ULK3 | GO:1903008 | organelle disassembly | 2.36e-02 |
| ULK3 | GO:0007224 | smoothened signaling pathway | 2.36e-02 |
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Related Drugs to ULK3_LIMS2 |
| Drugs used for this fusion-positive patient. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Drug | Source | PMID |
| Distribution of the number of studies mentioning ULK3-LIMS2 and kinase inhibitors the PubMed Abstract (04-01-2024) |
| Fusion gene - drug pair 1 | Fusion gene - drug pair 2 | PMID | Publication date | DOI | Study title |
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Related Diseases to ULK3_LIMS2 |
| Diseases that have this fusion gene. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Disease | Source | PMID |
| Related diseases from the literature mentioned this fusion gene and drug. (PubMed, 04-01-2024) |
| MeSH ID | MeSH term |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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Clinical Trials of the Found Drugs/Small Molecules |
| Statistics of the Clinical Trials of the Found Kinase Inibitors from clinicaltrials.gov (06-17-2024) |
| Clinical Trials from clinicaltrials.gov (06-17-2024) |
| Fusion Gene | Kinase Inhibitor | NCT ID | Study Status | Phases | Disease | # Enrolment | Date |
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