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Center for Computational Systems Medicine
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Fusion Gene and Fusion Protein Summary

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Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)

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Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)

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Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)

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Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)

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Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)

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Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

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Potential target of CAR-T therapy development

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Information on the samples that have these potential fusion neoantigens

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Fusion Protein Targeting Drugs - (Manual Curation)

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Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:SFXN4-SIRT3

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: SFXN4-SIRT3
FusionPDB ID: 81226
FusionGDB2.0 ID: 81226
HgeneTgene
Gene symbol

SFXN4

SIRT3

Gene ID

119559

23410

Gene namesideroflexin 4sirtuin 3
SynonymsBCRM1|COXPD18|SLC56A4SIR2L3
Cytomap

10q26.11

11p15.5

Type of geneprotein-codingprotein-coding
Descriptionsideroflexin-4breast cancer resistance marker 1NAD-dependent protein deacetylase sirtuin-3, mitochondrialNAD-dependent deacetylase sirtuin-3, mitochondrialSIR2-like protein 3mitochondrial nicotinamide adenine dinucleotide-dependent deacetylaseregulatory protein SIR2 homolog 3silent mating type in
Modification date2020031320200329
UniProtAcc..
Ensembl transtripts involved in fusion geneENST idsENST00000330036, ENST00000355697, 
ENST00000461438, 
ENST00000528702, 
ENST00000529382, ENST00000532956, 
ENST00000382743, ENST00000524564, 
ENST00000525319, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score1 X 1 X 1=17 X 5 X 5=175
# samples 17
** MAII scorelog2(1/1*10)=3.32192809488736log2(7/175*10)=-1.32192809488736
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: SFXN4 [Title/Abstract] AND SIRT3 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: SFXN4 [Title/Abstract] AND SIRT3 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)SFXN4(120925048)-SIRT3(224239), # samples:1
Anticipated loss of major functional domain due to fusion event.SFXN4-SIRT3 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.
SFXN4-SIRT3 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.
SFXN4-SIRT3 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.
SFXN4-SIRT3 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneSIRT3

GO:0006476

protein deacetylation

16788062

TgeneSIRT3

GO:1901671

positive regulation of superoxide dismutase activity

25210848

TgeneSIRT3

GO:1902553

positive regulation of catalase activity

25210848



check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr10:120925048/chr11:224239)
- 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.
FGviewer

check buttonRetention analysis results 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, are available here.

check buttonFusion gene breakpoints across SFXN4 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across SIRT3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Amino Acid Sequences


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000355697SFXN4chr10120925048-ENST00000382743SIRT3chr11224239-176413120523167
ENST00000355697SFXN4chr10120925048-ENST00000525319SIRT3chr11224239-101613120523167
ENST00000355697SFXN4chr10120925048-ENST00000524564SIRT3chr11224239-88513120577185
ENST00000330036SFXN4chr10120925048-ENST00000382743SIRT3chr11224239-176012716519167
ENST00000330036SFXN4chr10120925048-ENST00000525319SIRT3chr11224239-101212716519167
ENST00000330036SFXN4chr10120925048-ENST00000524564SIRT3chr11224239-88112716573185

check buttonDeepORF 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.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000355697ENST00000382743SFXN4chr10120925048-SIRT3chr11224239-0.0356078780.9643922
ENST00000355697ENST00000525319SFXN4chr10120925048-SIRT3chr11224239-0.037173220.9628268
ENST00000355697ENST00000524564SFXN4chr10120925048-SIRT3chr11224239-0.059507510.9404925
ENST00000330036ENST00000382743SFXN4chr10120925048-SIRT3chr11224239-0.0255341230.9744659
ENST00000330036ENST00000525319SFXN4chr10120925048-SIRT3chr11224239-0.0290513910.97094864
ENST00000330036ENST00000524564SFXN4chr10120925048-SIRT3chr11224239-0.051061780.9489382

check button Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

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 SFXN4-SIRT3

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
SFXN4chr10120925048SIRT3chr1122423912736FIEPNVRFWITERQADVMADRVPRCP
SFXN4chr10120925048SIRT3chr1122423913136FIEPNVRFWITERQADVMADRVPRCP

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Potential FusionNeoAntigen Information of SFXN4-SIRT3 in HLA I

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.
SFXN4-SIRT3_120925048_224239.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)
Fusion geneHchrHbpTgeneTchrTbpHLA IFusionNeoAntigen peptideBinding scoreImmunogenic scoreNeoantigen start (at BP 13)Neoantigen end (at BP 13)
SFXN4-SIRT3chr10120925048chr11224239127HLA-B18:01TERQADVM0.97920.80111018
SFXN4-SIRT3chr10120925048chr11224239127HLA-B45:01TERQADVMA0.97980.94741019
SFXN4-SIRT3chr10120925048chr11224239127HLA-B50:02TERQADVMA0.96870.76091019
SFXN4-SIRT3chr10120925048chr11224239127HLA-A74:09RQADVMADR0.9570.6091221
SFXN4-SIRT3chr10120925048chr11224239127HLA-A74:11RQADVMADR0.9570.6091221
SFXN4-SIRT3chr10120925048chr11224239127HLA-A74:03RQADVMADR0.9570.6091221
SFXN4-SIRT3chr10120925048chr11224239127HLA-A31:02RQADVMADR0.89560.58661221
SFXN4-SIRT3chr10120925048chr11224239127HLA-B41:01TERQADVMA0.37660.94451019
SFXN4-SIRT3chr10120925048chr11224239127HLA-B50:01TERQADVMA0.17770.89181019
SFXN4-SIRT3chr10120925048chr11224239127HLA-A02:21RQADVMADRV0.97570.62571222
SFXN4-SIRT3chr10120925048chr11224239127HLA-B13:02RQADVMADRV0.80140.91621222
SFXN4-SIRT3chr10120925048chr11224239127HLA-B27:14VRFWITERQ0.99660.6002514
SFXN4-SIRT3chr10120925048chr11224239127HLA-B40:06TERQADVMA0.99420.93631019
SFXN4-SIRT3chr10120925048chr11224239127HLA-A31:01RQADVMADR0.95520.56271221
SFXN4-SIRT3chr10120925048chr11224239127HLA-A02:05RQADVMADRV0.99310.521222
SFXN4-SIRT3chr10120925048chr11224239127HLA-B73:01VRFWITERQA0.98320.9448515
SFXN4-SIRT3chr10120925048chr11224239127HLA-B18:05TERQADVM0.97920.80111018
SFXN4-SIRT3chr10120925048chr11224239127HLA-B18:11TERQADVM0.9420.72421018
SFXN4-SIRT3chr10120925048chr11224239127HLA-A74:01RQADVMADR0.9570.6091221
SFXN4-SIRT3chr10120925048chr11224239127HLA-B50:05TERQADVMA0.17770.89181019
SFXN4-SIRT3chr10120925048chr11224239127HLA-B50:04TERQADVMA0.17770.89181019
SFXN4-SIRT3chr10120925048chr11224239127HLA-A02:14RQADVMADRV0.97580.58111222
SFXN4-SIRT3chr10120925048chr11224239127HLA-A02:06RQADVMADRV0.97570.62571222

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Potential FusionNeoAntigen Information of SFXN4-SIRT3 in HLA II

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.
SFXN4-SIRT3_120925048_224239.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).
Fusion geneHchrHbpTgeneTchrTbpHLA IIFusionNeoAntigen peptideNeoantigen start (at BP 13)Neoantigen end (at BP 13)
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0437EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0437IEPNVRFWITERQAD116
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0437FIEPNVRFWITERQA015
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0437PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0465EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0465IEPNVRFWITERQAD116
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0473EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0473IEPNVRFWITERQAD116
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0801NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0801PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0801EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0803NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0803PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0803EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0805NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0805PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0805EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0808NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0811NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0814NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0814PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0814EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0816NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0816PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0816EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0818NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0818PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0818EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0823NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0823PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0823EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0826NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0826PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0826EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0827NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0827PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0827EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0829NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0829PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0829EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0829VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0833NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0833PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0833EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0835NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0835PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0835EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0836NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0836PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0836EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0837NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0837PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0837EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0838NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0838PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0838EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0839NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0839PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0839EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0840NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0840PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-0840EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1303NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1303PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1303EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1303VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-13101NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-13101PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-13101EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-13101VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1310NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1310PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1310EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1310VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1312NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1312PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1312EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1312VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1313NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1313PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1313EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1313VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1321NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1321PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1321EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1330NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1330PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1330EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1330VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1333NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1333PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1333EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1338NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1338PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1338EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1349NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1349PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1349EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1355NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1355PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1355EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1365NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1365PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1365EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1366NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1366PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1366EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1366VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1388NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1388PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1388EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1390NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1390PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1390EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1390VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1395NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1395PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1395EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1395VRFWITERQADVMAD520
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1407NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1407PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1413NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1413PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1413EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1414NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1422NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1422PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1422EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1425NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1425PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1425EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1436NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1442NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1444NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1453NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1453PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1453EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1457EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1457IEPNVRFWITERQAD116
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1457FIEPNVRFWITERQA015
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1463NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1463PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1463EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1468NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1469NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1469PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1469EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1485NVRFWITERQADVMA419
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1485PNVRFWITERQADVM318
SFXN4-SIRT3chr10120925048chr11224239127DRB1-1485EPNVRFWITERQADV217
SFXN4-SIRT3chr10120925048chr11224239127DRB5-0204EPNVRFWITERQADV217

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Fusion breakpoint peptide structures of SFXN4-SIRT3

check button3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* 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 nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
7847RFWITERQADVMADSFXN4SIRT3chr10120925048chr11224239127

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of SFXN4-SIRT3

check buttonVirtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.
HLA allelePDB IDFile nameBPseqDocking scoreGlide score
HLA-B52:013W397847RFWITERQADVMAD-6.93486-6.93486
HLA-B44:053DX87847RFWITERQADVMAD-6.86605-6.86605

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Vaccine Design for the FusionNeoAntigens of SFXN4-SIRT3

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptide sequenceFusionNeoAntigen RNA sequence
SFXN4-SIRT3chr10120925048chr112242391018TERQADVMGAGCGCCAAGCTGACGTGATGGCA
SFXN4-SIRT3chr10120925048chr112242391019TERQADVMAGAGCGCCAAGCTGACGTGATGGCAGAC
SFXN4-SIRT3chr10120925048chr112242391221RQADVMADRCAAGCTGACGTGATGGCAGACAGGGTT
SFXN4-SIRT3chr10120925048chr112242391222RQADVMADRVCAAGCTGACGTGATGGCAGACAGGGTTCCC
SFXN4-SIRT3chr10120925048chr11224239514VRFWITERQCGCTTCTGGATCACCGAGCGCCAAGCT
SFXN4-SIRT3chr10120925048chr11224239515VRFWITERQACGCTTCTGGATCACCGAGCGCCAAGCTGAC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
SFXN4-SIRT3chr10120925048chr11224239015FIEPNVRFWITERQAATTGAGCCCAACGTGCGCTTCTGGATCACCGAGCGCCAAGCTGAC
SFXN4-SIRT3chr10120925048chr11224239116IEPNVRFWITERQADGAGCCCAACGTGCGCTTCTGGATCACCGAGCGCCAAGCTGACGTG
SFXN4-SIRT3chr10120925048chr11224239217EPNVRFWITERQADVCCCAACGTGCGCTTCTGGATCACCGAGCGCCAAGCTGACGTGATG
SFXN4-SIRT3chr10120925048chr11224239318PNVRFWITERQADVMAACGTGCGCTTCTGGATCACCGAGCGCCAAGCTGACGTGATGGCA
SFXN4-SIRT3chr10120925048chr11224239419NVRFWITERQADVMAGTGCGCTTCTGGATCACCGAGCGCCAAGCTGACGTGATGGCAGAC
SFXN4-SIRT3chr10120925048chr11224239520VRFWITERQADVMADCGCTTCTGGATCACCGAGCGCCAAGCTGACGTGATGGCAGACAGG

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Information of the samples that have these potential fusion neoantigens of SFXN4-SIRT3

check button These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.
Cancer typeFusion geneHchrHbpHenstTchrTbpTenstSample
SKCMSFXN4-SIRT3chr10120925048ENST00000330036chr11224239ENST00000382743TCGA-GN-A26C

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Potential target of CAR-T therapy development for SFXN4-SIRT3

check button Predicted 3D structure. We used RoseTTAFold.

check buttonRetention 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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features


* Minus value of BPloci means that the break point is located before the CDS.
- In-frame and retained 'Transmembrane'.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

check button Subcellular localization prediction of the transmembrane domain retained fusion proteins
* 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.
HgeneHchrHbpHenstTgeneTchrTbpTenstDeepLoc result

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Related Drugs to SFXN4-SIRT3

check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to SFXN4-SIRT3

check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource