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Fusion Protein:ATP8A1-LDB2 |
Fusion Gene and Fusion Protein Summary |
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Fusion partner gene information | Fusion gene name: ATP8A1-LDB2 | FusionPDB ID: 8233 | FusionGDB2.0 ID: 8233 | Hgene | Tgene | Gene symbol | ATP8A1 | LDB2 | Gene ID | 10396 | 9079 |
Gene name | ATPase phospholipid transporting 8A1 | LIM domain binding 2 | |
Synonyms | ATPASEII|ATPIA|ATPP2 | CLIM1|LDB-2|LDB1 | |
Cytomap | 4p13 | 4p15.32 | |
Type of gene | protein-coding | protein-coding | |
Description | phospholipid-transporting ATPase IAATPase IIATPase class I type 8A member 1ATPase, aminophospholipid transporter (APLT), class I, type 8A, member 1P4-ATPase flippase complex alpha subunit ATP8A1aminophospholipid translocasechromaffin granule ATPase | LIM domain-binding protein 2LIM binding domain 2LIM domain-binding factor CLIM1LIM domain-binding factor-2carboxyl-terminal LIM domain-binding protein 1 | |
Modification date | 20200329 | 20200313 | |
UniProtAcc | Q9Y2Q0 Main function of 5'-partner protein: FUNCTION: Catalytic component of a P4-ATPase flippase complex which catalyzes the hydrolysis of ATP coupled to the transport of aminophospholipids from the outer to the inner leaflet of various membranes and ensures the maintenance of asymmetric distribution of phospholipids (PubMed:31416931). Phospholipid translocation seems also to be implicated in vesicle formation and in uptake of lipid signaling molecules. In vitro, its ATPase activity is selectively and stereospecifically stimulated by phosphatidylserine (PS) (PubMed:31416931). The flippase complex ATP8A1:TMEM30A seems to play a role in regulation of cell migration probably involving flippase-mediated translocation of phosphatidylethanolamine (PE) at the plasma membrane (By similarity). Acts as aminophospholipid translocase at the plasma membrane in neuronal cells (By similarity). {ECO:0000250|UniProtKB:P70704, ECO:0000269|PubMed:31416931}. | O43679 Main function of 5'-partner protein: FUNCTION: Binds to the LIM domain of a wide variety of LIM domain-containing transcription factors. | |
Ensembl transtripts involved in fusion gene | ENST ids | ENST00000264449, ENST00000381668, ENST00000510289, | ENST00000503178, ENST00000503829, ENST00000304523, ENST00000441778, ENST00000502640, ENST00000515064, |
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 9 X 13 X 7=819 | 5 X 5 X 4=100 |
# samples | 13 | 5 | |
** MAII score | log2(13/819*10)=-2.65535182861255 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(5/100*10)=-1 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Fusion gene context | PubMed: ATP8A1 [Title/Abstract] AND LDB2 [Title/Abstract] AND fusion [Title/Abstract] | ||
Fusion neoantigen context | PubMed: ATP8A1 [Title/Abstract] AND LDB2 [Title/Abstract] AND neoantigen [Title/Abstract] | ||
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | ATP8A1(42658842)-LDB2(16760883), # samples:3 | ||
Anticipated loss of major functional domain due to fusion event. | ATP8A1-LDB2 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. ATP8A1-LDB2 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) |
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Partner | Gene | GO ID | GO term | PubMed ID |
![]() Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr4:42658842/chr4:16760883) - 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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![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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![]() * 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 Amino Acid Sequences |
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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) |
ENST00000381668 | ATP8A1 | chr4 | 42658842 | - | ENST00000515064 | LDB2 | chr4 | 16760883 | - | 2367 | 281 | 203 | 1264 | 353 |
ENST00000381668 | ATP8A1 | chr4 | 42658842 | - | ENST00000441778 | LDB2 | chr4 | 16760883 | - | 2516 | 281 | 203 | 1144 | 313 |
ENST00000381668 | ATP8A1 | chr4 | 42658842 | - | ENST00000304523 | LDB2 | chr4 | 16760883 | - | 2373 | 281 | 203 | 1270 | 355 |
ENST00000381668 | ATP8A1 | chr4 | 42658842 | - | ENST00000502640 | LDB2 | chr4 | 16760883 | - | 2626 | 281 | 203 | 1090 | 295 |
ENST00000264449 | ATP8A1 | chr4 | 42658842 | - | ENST00000515064 | LDB2 | chr4 | 16760883 | - | 2355 | 269 | 191 | 1252 | 353 |
ENST00000264449 | ATP8A1 | chr4 | 42658842 | - | ENST00000441778 | LDB2 | chr4 | 16760883 | - | 2504 | 269 | 191 | 1132 | 313 |
ENST00000264449 | ATP8A1 | chr4 | 42658842 | - | ENST00000304523 | LDB2 | chr4 | 16760883 | - | 2361 | 269 | 191 | 1258 | 355 |
ENST00000264449 | ATP8A1 | chr4 | 42658842 | - | ENST00000502640 | LDB2 | chr4 | 16760883 | - | 2614 | 269 | 191 | 1078 | 295 |
ENST00000510289 | ATP8A1 | chr4 | 42658842 | - | ENST00000515064 | LDB2 | chr4 | 16760883 | - | 2355 | 269 | 191 | 1252 | 353 |
ENST00000510289 | ATP8A1 | chr4 | 42658842 | - | ENST00000441778 | LDB2 | chr4 | 16760883 | - | 2504 | 269 | 191 | 1132 | 313 |
ENST00000510289 | ATP8A1 | chr4 | 42658842 | - | ENST00000304523 | LDB2 | chr4 | 16760883 | - | 2361 | 269 | 191 | 1258 | 355 |
ENST00000510289 | ATP8A1 | chr4 | 42658842 | - | ENST00000502640 | LDB2 | chr4 | 16760883 | - | 2614 | 269 | 191 | 1078 | 295 |
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Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
ENST00000381668 | ENST00000515064 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.004534284 | 0.9954657 |
ENST00000381668 | ENST00000441778 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.1056633 | 0.8943367 |
ENST00000381668 | ENST00000304523 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.004761017 | 0.995239 |
ENST00000381668 | ENST00000502640 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.06754948 | 0.9324505 |
ENST00000264449 | ENST00000515064 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.004497547 | 0.9955024 |
ENST00000264449 | ENST00000441778 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.08090557 | 0.91909444 |
ENST00000264449 | ENST00000304523 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.003926731 | 0.99607325 |
ENST00000264449 | ENST00000502640 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.07072219 | 0.92927784 |
ENST00000510289 | ENST00000515064 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.004497547 | 0.9955024 |
ENST00000510289 | ENST00000441778 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.08090557 | 0.91909444 |
ENST00000510289 | ENST00000304523 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.003926731 | 0.99607325 |
ENST00000510289 | ENST00000502640 | ATP8A1 | chr4 | 42658842 | - | LDB2 | chr4 | 16760883 | - | 0.07072219 | 0.92927784 |
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Get the fusion protein sequences from here. |
Fusion protein sequence information is available in the fasta format. >FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP |
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Fusion Protein Breakpoint Sequences for ATP8A1-LDB2 |
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Hgene | Hchr | Hbp | Tgene | Tchr | Tbp | Length(fusion protein) | BP in fusion protein | Peptide |
ATP8A1 | chr4 | 42658842 | LDB2 | chr4 | 16760883 | 269 | 26 | CGGPCRRSARAPKDSDNLWWDAFATE |
ATP8A1 | chr4 | 42658842 | LDB2 | chr4 | 16760883 | 281 | 26 | CGGPCRRSARAPKDSDNLWWDAFATE |
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Potential FusionNeoAntigen Information of ATP8A1-LDB2 in HLA I |
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ATP8A1-LDB2_42658842_16760883.msa |
![]() * We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5) |
Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA I | FusionNeoAntigen peptide | Binding score | Immunogenic score | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B35:08 | APKDSDNLW | 0.7611 | 0.9457 | 10 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B57:01 | RAPKDSDNLW | 0.9993 | 0.9713 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B58:02 | RAPKDSDNLW | 0.9987 | 0.9415 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B58:01 | RAPKDSDNLW | 0.9983 | 0.917 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B57:03 | RAPKDSDNLW | 0.9945 | 0.9815 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B15:16 | RAPKDSDNLW | 0.9809 | 0.8798 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B53:01 | APKDSDNLWW | 0.797 | 0.5542 | 10 | 20 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B58:02 | RAPKDSDNLWW | 0.9997 | 0.9452 | 9 | 20 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B58:01 | RAPKDSDNLWW | 0.9993 | 0.9349 | 9 | 20 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-C01:17 | RAPKDSDNL | 0.632 | 0.9474 | 9 | 18 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-C01:30 | RAPKDSDNL | 0.2234 | 0.9379 | 9 | 18 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B15:13 | APKDSDNLW | 0.8446 | 0.7961 | 10 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-C01:02 | RAPKDSDNL | 0.6859 | 0.9473 | 9 | 18 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-C01:03 | RAPKDSDNL | 0.6554 | 0.9431 | 9 | 18 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B57:10 | RAPKDSDNLW | 0.9993 | 0.9713 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B57:04 | RAPKDSDNLW | 0.9983 | 0.7888 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B58:06 | RAPKDSDNLW | 0.9983 | 0.91 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B57:02 | RAPKDSDNLW | 0.9856 | 0.9195 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B15:24 | RAPKDSDNLW | 0.9782 | 0.9636 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B53:02 | APKDSDNLWW | 0.6779 | 0.6167 | 10 | 20 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B53:02 | RAPKDSDNLW | 0.656 | 0.5211 | 9 | 19 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B57:04 | RAPKDSDNLWW | 0.9996 | 0.7873 | 9 | 20 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B57:02 | RAPKDSDNLWW | 0.9972 | 0.9402 | 9 | 20 |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 | HLA-B53:02 | ARAPKDSDNLW | 0.9835 | 0.5385 | 8 | 19 |
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Potential FusionNeoAntigen Information of ATP8A1-LDB2 in HLA II |
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![]() * We used NetMHCIIpan v4.1 (%rank<0.5). |
Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA II | FusionNeoAntigen peptide | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
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Fusion breakpoint peptide structures of ATP8A1-LDB2 |
![]() * The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA. |
File name | BPseq | Hgene | Tgene | Hchr | Hbp | Tchr | Tbp | AAlen |
8207 | RSARAPKDSDNLWW | ATP8A1 | LDB2 | chr4 | 42658842 | chr4 | 16760883 | 269 |
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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of ATP8A1-LDB2 |
![]() * We used Glide to predict the interaction between HLAs and neoantigens. |
HLA allele | PDB ID | File name | BPseq | Docking score | Glide score |
HLA-B14:02 | 3BVN | 8207 | RSARAPKDSDNLWW | -7.15543 | -7.26883 |
HLA-B14:02 | 3BVN | 8207 | RSARAPKDSDNLWW | -4.77435 | -5.80965 |
HLA-B52:01 | 3W39 | 8207 | RSARAPKDSDNLWW | -6.80875 | -6.92215 |
HLA-B52:01 | 3W39 | 8207 | RSARAPKDSDNLWW | -4.20386 | -5.23916 |
HLA-A11:01 | 4UQ2 | 8207 | RSARAPKDSDNLWW | -7.5194 | -8.5547 |
HLA-A11:01 | 4UQ2 | 8207 | RSARAPKDSDNLWW | -6.9601 | -7.0735 |
HLA-A24:02 | 5HGA | 8207 | RSARAPKDSDNLWW | -7.52403 | -7.63743 |
HLA-A24:02 | 5HGA | 8207 | RSARAPKDSDNLWW | -5.82433 | -6.85963 |
HLA-B27:05 | 6PYJ | 8207 | RSARAPKDSDNLWW | -3.28285 | -4.31815 |
HLA-B44:05 | 3DX8 | 8207 | RSARAPKDSDNLWW | -5.91172 | -6.94702 |
HLA-B44:05 | 3DX8 | 8207 | RSARAPKDSDNLWW | -4.24346 | -4.35686 |
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Vaccine Design for the FusionNeoAntigens of ATP8A1-LDB2 |
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Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide sequence | FusionNeoAntigen RNA sequence |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 10 | 19 | APKDSDNLW | GCGCCGAAGGATAGTGACAACCTCTGG |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 10 | 20 | APKDSDNLWW | GCGCCGAAGGATAGTGACAACCTCTGGTGG |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 8 | 19 | ARAPKDSDNLW | GCTCGCGCGCCGAAGGATAGTGACAACCTCTGG |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 9 | 18 | RAPKDSDNL | CGCGCGCCGAAGGATAGTGACAACCTC |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 9 | 19 | RAPKDSDNLW | CGCGCGCCGAAGGATAGTGACAACCTCTGG |
ATP8A1-LDB2 | chr4 | 42658842 | chr4 | 16760883 | 9 | 20 | RAPKDSDNLWW | CGCGCGCCGAAGGATAGTGACAACCTCTGGTGG |
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Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide | FusionNEoAntigen RNA sequence |
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Information of the samples that have these potential fusion neoantigens of ATP8A1-LDB2 |
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Cancer type | Fusion gene | Hchr | Hbp | Henst | Tchr | Tbp | Tenst | Sample |
KIRC | ATP8A1-LDB2 | chr4 | 42658842 | ENST00000264449 | chr4 | 16760883 | ENST00000304523 | TCGA-CW-5581-01A |
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Potential target of CAR-T therapy development for ATP8A1-LDB2 |
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![]() * Minus value of BPloci means that the break point is located before the CDS. |
- In-frame and retained 'Transmembrane'. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
![]() * We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image. |
Hgene | Hchr | Hbp | Henst | Tgene | Tchr | Tbp | Tenst | DeepLoc result |
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Related Drugs to ATP8A1-LDB2 |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to ATP8A1-LDB2 |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Disease | Source | PMID |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |