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Fusion Protein:NKD1-BRD7 |
Fusion Protein Summary |
 Fusion gene summary |
| Fusion partner gene information | Fusion gene name: NKD1-BRD7 | FusionPDB ID: 59266 | FusionGDB2.0 ID: 59266 | Hgene | Tgene | Gene symbol | NKD1 | BRD7 | Gene ID | 85407 | 29117 |
| Gene name | NKD inhibitor of WNT signaling pathway 1 | bromodomain containing 7 | |
| Synonyms | Naked1 | BP75|CELTIX1|NAG4 | |
| Cytomap | 16q12.1 | 16q12.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | protein naked cuticle homolog 1Dvl-binding proteinNKD1, WNT signaling pathway inhibitornaked cuticle homolog 1naked cuticle-1naked-1 | bromodomain-containing protein 775 kDa bromodomain proteinprotein CELTIX-1 | |
| Modification date | 20200313 | 20200313 | |
| UniProtAcc | Q969G9 | Q9NPI1 | |
| Ensembl transtripts involved in fusion gene | ENST ids | ENST00000564336, ENST00000268459, | ENST00000394688, ENST00000394689, ENST00000401491, |
| Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 7 X 4 X 6=168 | 5 X 5 X 3=75 |
| # samples | 8 | 5 | |
| ** MAII score | log2(8/168*10)=-1.0703893278914 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(5/75*10)=-0.584962500721156 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context (manual curation of fusion genes in FusionPDB) | PubMed: NKD1 [Title/Abstract] AND BRD7 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | NKD1(50583466)-BRD7(50388833), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | NKD1-BRD7 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. NKD1-BRD7 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. NKD1-BRD7 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. NKD1-BRD7 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. | ||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| 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 |
| Tgene | BRD7 | GO:0006357 | regulation of transcription by RNA polymerase II | 12489984 |
| Tgene | BRD7 | GO:0008285 | negative regulation of cell proliferation | 20228809 |
| Tgene | BRD7 | GO:0035066 | positive regulation of histone acetylation | 20228809 |
| Tgene | BRD7 | GO:0045892 | negative regulation of transcription, DNA-templated | 16265664 |
| Tgene | BRD7 | GO:0045893 | positive regulation of transcription, DNA-templated | 20228809 |
| Tgene | BRD7 | GO:2000134 | negative regulation of G1/S transition of mitotic cell cycle | 16265664 |
| Fusion gene breakpoints across NKD1 (5'-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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| Fusion gene breakpoints across BRD7 (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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Fusion Gene Sample Information |
| Fusion gene information from FusionGDB2.0. |
| Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0) * 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 | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| ChimerDB4 | BRCA | TCGA-AO-A0JE-01A | NKD1 | chr16 | 50583466 | + | BRD7 | chr16 | 50388833 | - |
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Fusion ORF Analysis |
| Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
| ENST00000268459 | NKD1 | chr16 | 50583466 | + | ENST00000394688 | BRD7 | chr16 | 50388833 | - | 5368 | 416 | 134 | 2113 | 659 |
| ENST00000268459 | NKD1 | chr16 | 50583466 | + | ENST00000394689 | BRD7 | chr16 | 50388833 | - | 2298 | 416 | 134 | 2116 | 660 |
| DeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
| ENST00000268459 | ENST00000394688 | NKD1 | chr16 | 50583466 | + | BRD7 | chr16 | 50388833 | - | 0.00040003 | 0.9996 |
| ENST00000268459 | ENST00000394689 | NKD1 | chr16 | 50583466 | + | BRD7 | chr16 | 50388833 | - | 0.002033719 | 0.9979663 |
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Fusion Amino Acid Sequences |
| For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones. |
| >FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP >59266_59266_1_NKD1-BRD7_NKD1_chr16_50583466_ENST00000268459_BRD7_chr16_50388833_ENST00000394688_length(amino acids)=659AA_BP=10 MLREEESQGRRQARGPGAWLRDAPGRRSPSMGKLHSKPAAVCKRRESPEGDSFAVSAAWARKGIEEWIGRQRCPGGVSGPRQLRLAGTIG RSTREDKKKRDRDRVENEAEKDLQCHAPVRLDLPPEKPLTSSLAKQEEVEQTPLQEALNQLMRQLQRKDPSAFFSFPVTDFIAPGYSMII KHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQERIQSLKQSIDFMADLQKTRKQKDGTDT SQSGEDGGCWQREREDSGDAEAHAFKSPSKENKKKDKDMLEDKFKSNNLEREQEQLDRIVKESGGKLTRRLVNSQCEFERRKPDGTTTLG LLHPVDPIVGEPGYCPVRLGMTTGRLQSGVNTLQGFKEDKRNKVTPVLYLNYGPYSSYAPHYDSTFANISKDDSDLIYSTYGEDSDLPSD FSIHEFLATCQDYPYVMADSLLDVLTKGGHSRTLQEMEMSLPEDEGHTRTLDTAKEMEITEVEPPGRLDSSTQDRLIALKAVTNFGVPVE VFDSEEAEIFQKKLDETTRLLRELQEAQNERLSTRPPPNMICLLGPSYREMHLAEQVTNNLKELAQQVTPGDIVSTYGVRKAMGISIPSP -------------------------------------------------------------- >59266_59266_2_NKD1-BRD7_NKD1_chr16_50583466_ENST00000268459_BRD7_chr16_50388833_ENST00000394689_length(amino acids)=660AA_BP=10 MLREEESQGRRQARGPGAWLRDAPGRRSPSMGKLHSKPAAVCKRRESPEGDSFAVSAAWARKGIEEWIGRQRCPGGVSGPRQLRLAGTIG RSTREDKKKRDRDRVENEAEKDLQCHAPVRLDLPPEKPLTSSLAKQEEVEQTPLQEALNQLMRQLQRKDPSAFFSFPVTDFIAPGYSMII KHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQERIQSLKQSIDFMADLQKTRKQKDGTDT SQSGEDGGCWQREREDSGDAEAHAFKSPSKENKKKDKDMLEDKFKSNNLEREQEQLDRIVKESGGKLTRRLVNSQCEFERRKPDGTTTLG LLHPVDPIVGEPGYCPVRLGMTTGRLQSGVNTLQGFKEDKRNKVTPVLYLNYGPYSSYAPHYDSTFANISKDDSDLIYSTYGEDSDLPSD FSIHEFLATCQDYPYVMADSLLDVLTKGGHSRTLQEMEMSLPEDEGHTRTLDTAKEMEQITEVEPPGRLDSSTQDRLIALKAVTNFGVPV EVFDSEEAEIFQKKLDETTRLLRELQEAQNERLSTRPPPNMICLLGPSYREMHLAEQVTNNLKELAQQVTPGDIVSTYGVRKAMGISIPS -------------------------------------------------------------- |
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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/chr16:50583466/chr16:50388833) - 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 |
| NKD1 | BRD7 |
| FUNCTION: Cell autonomous antagonist of the canonical Wnt signaling pathway. May activate a second Wnt signaling pathway that controls planar cell polarity. {ECO:0000269|PubMed:11752446, ECO:0000269|PubMed:15687260, ECO:0000269|PubMed:16567647}. | FUNCTION: Acts both as coactivator and as corepressor. May play a role in chromatin remodeling. Activator of the Wnt signaling pathway in a DVL1-dependent manner by negatively regulating the GSK3B phosphotransferase activity. Induces dephosphorylation of GSK3B at 'Tyr-216'. Down-regulates TRIM24-mediated activation of transcriptional activation by AR (By similarity). Transcriptional corepressor that down-regulates the expression of target genes. Binds to target promoters, leading to increased histone H3 acetylation at 'Lys-9' (H3K9ac). Binds to the ESR1 promoter. Recruits BRCA1 and POU2F1 to the ESR1 promoter. Coactivator for TP53-mediated activation of transcription of a set of target genes. Required for TP53-mediated cell-cycle arrest in response to oncogene activation. Promotes acetylation of TP53 at 'Lys-382', and thereby promotes efficient recruitment of TP53 to target promoters. Inhibits cell cycle progression from G1 to S phase. {ECO:0000250, ECO:0000269|PubMed:16265664, ECO:0000269|PubMed:16475162, ECO:0000269|PubMed:20215511, ECO:0000269|PubMed:20228809, ECO:0000269|PubMed:20660729}. |
| 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 protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394688 | 1 | 17 | 536_567 | 86.0 | 652.0 | Coiled coil | Ontology_term=ECO:0000255 | |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394689 | 1 | 17 | 536_567 | 86.0 | 653.0 | Coiled coil | Ontology_term=ECO:0000255 | |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394688 | 1 | 17 | 148_218 | 86.0 | 652.0 | Domain | Bromo | |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394689 | 1 | 17 | 148_218 | 86.0 | 653.0 | Domain | Bromo |
| - Not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| Hgene | NKD1 | chr16:50583466 | chr16:50388833 | ENST00000268459 | + | 3 | 10 | 144_155 | 64.0 | 471.0 | Calcium binding | Ontology_term=ECO:0000255 |
| Hgene | NKD1 | chr16:50583466 | chr16:50388833 | ENST00000268459 | + | 3 | 10 | 452_466 | 64.0 | 471.0 | Compositional bias | Note=His-rich |
| Hgene | NKD1 | chr16:50583466 | chr16:50388833 | ENST00000268459 | + | 3 | 10 | 131_166 | 64.0 | 471.0 | Domain | EF-hand |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394688 | 1 | 17 | 3_91 | 86.0 | 652.0 | Compositional bias | Note=Lys-rich | |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394689 | 1 | 17 | 3_91 | 86.0 | 653.0 | Compositional bias | Note=Lys-rich | |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394688 | 1 | 17 | 65_96 | 86.0 | 652.0 | Motif | Nuclear localization signal | |
| Tgene | BRD7 | chr16:50583466 | chr16:50388833 | ENST00000394689 | 1 | 17 | 65_96 | 86.0 | 653.0 | Motif | Nuclear localization signal |
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Fusion Protein-Protein Interaction |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in |
| Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160) |
| Gene | PPI interactors |
| Protein-protein interactors based on sequence similarity (STRING) |
| Gene | STRING network |
| NKD1 | |
| BRD7 |
| - Retained interactions in fusion protein (protein functional feature from UniProt). |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost interactions due to fusion (protein functional feature from UniProt). |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| Hgene | NKD1 | chr16:50583466 | chr16:50388833 | ENST00000268459 | + | 3 | 10 | 125_190 | 64.0 | 471.0 | DVL1%2C DVL2 and DVL3 |
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Related Drugs to NKD1-BRD7 |
| Drugs used for this fusion-positive patient. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to NKD1-BRD7 |
| Diseases that have this fusion gene. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Disease | Source | PMID |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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