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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:DPP3-FKBP2

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: DPP3-FKBP2
FusionPDB ID: 24012
FusionGDB2.0 ID: 24012
HgeneTgene
Gene symbol

DPP3

FKBP2

Gene ID

10072

2286

Gene namedipeptidyl peptidase 3FKBP prolyl isomerase 2
SynonymsDPPIIIFKBP-13|FKBP13|PPIase
Cytomap

11q13.2

11q13.1

Type of geneprotein-codingprotein-coding
Descriptiondipeptidyl peptidase 3DPP IIIdipeptidyl aminopeptidase IIIdipeptidyl arylamidase IIIdipeptidyl peptidase IIIenkephalinase Bpeptidyl-prolyl cis-trans isomerase FKBP213 kDa FK506-binding protein13 kDa FKBPFK506 binding protein 2, 13kDaFK506-binding protein 2PPIase FKBP2epididymis secretory sperm binding proteinimmunophilin FKBP13proline isomeraserapamycin-binding prote
Modification date2020031320200313
UniProtAcc

Q9NY33

Main function of 5'-partner protein: FUNCTION: Cleaves and degrades bioactive peptides, including angiotensin, Leu-enkephalin and Met-enkephalin (PubMed:3233187, PubMed:1515063). Also cleaves Arg-Arg-beta-naphthylamide (in vitro) (PubMed:9425109, PubMed:3233187, PubMed:11209758). {ECO:0000269|PubMed:11209758, ECO:0000269|PubMed:1515063, ECO:0000269|PubMed:3233187, ECO:0000269|PubMed:9425109}.

P26885

Main function of 5'-partner protein: FUNCTION: PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.
Ensembl transtripts involved in fusion geneENST idsENST00000360510, ENST00000453114, 
ENST00000530165, ENST00000531863, 
ENST00000532677, ENST00000541961, 
ENST00000533799, 		ENST00000309366, 
ENST00000394540, ENST00000449942, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score8 X 8 X 6=3847 X 7 X 3=147
# samples 108
** MAII scorelog2(10/384*10)=-1.94110631094643
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/147*10)=-0.877744249949002
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: DPP3 [Title/Abstract] AND FKBP2 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: DPP3 [Title/Abstract] AND FKBP2 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)DPP3(66272245)-FKBP2(64011313), # samples:3
Anticipated loss of major functional domain due to fusion event.DPP3-FKBP2 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.
DPP3-FKBP2 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.
DPP3-FKBP2 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.
DPP3-FKBP2 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
HgeneDPP3

GO:0006508

proteolysis

9425109|10387075



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/chr11:66272245/chr11:64011313)
- 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 DPP3 (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 FKBP2 (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)
ENST00000531863DPP3chr1166272245+ENST00000309366FKBP2chr1164011313+269525024012599732
ENST00000531863DPP3chr1166272245+ENST00000449942FKBP2chr1164011313+269725024012599732
ENST00000531863DPP3chr1166272245+ENST00000394540FKBP2chr1164011313+270325024012599732
ENST00000532677DPP3chr1166272245+ENST00000309366FKBP2chr1164011313+269224994012596731
ENST00000532677DPP3chr1166272245+ENST00000449942FKBP2chr1164011313+269424994012596731
ENST00000532677DPP3chr1166272245+ENST00000394540FKBP2chr1164011313+270024994012596731
ENST00000453114DPP3chr1166272245+ENST00000309366FKBP2chr1164011313+2296210352200731
ENST00000453114DPP3chr1166272245+ENST00000449942FKBP2chr1164011313+2298210352200731
ENST00000453114DPP3chr1166272245+ENST00000394540FKBP2chr1164011313+2304210352200731
ENST00000360510DPP3chr1166272245+ENST00000309366FKBP2chr1164011313+2299210652203732
ENST00000360510DPP3chr1166272245+ENST00000449942FKBP2chr1164011313+2301210652203732
ENST00000360510DPP3chr1166272245+ENST00000394540FKBP2chr1164011313+2307210652203732
ENST00000541961DPP3chr1166272245+ENST00000309366FKBP2chr1164011313+22902097562194712
ENST00000541961DPP3chr1166272245+ENST00000449942FKBP2chr1164011313+22922097562194712
ENST00000541961DPP3chr1166272245+ENST00000394540FKBP2chr1164011313+22982097562194712
ENST00000530165DPP3chr1166272245+ENST00000309366FKBP2chr1164011313+21771984332081682
ENST00000530165DPP3chr1166272245+ENST00000449942FKBP2chr1164011313+21791984332081682
ENST00000530165DPP3chr1166272245+ENST00000394540FKBP2chr1164011313+21851984332081682
ENST00000531863DPP3chr1166272245+ENST00000309366FKBP2chr1164011312+269525024012599732
ENST00000531863DPP3chr1166272245+ENST00000449942FKBP2chr1164011312+269725024012599732
ENST00000531863DPP3chr1166272245+ENST00000394540FKBP2chr1164011312+270325024012599732
ENST00000532677DPP3chr1166272245+ENST00000309366FKBP2chr1164011312+269224994012596731
ENST00000532677DPP3chr1166272245+ENST00000449942FKBP2chr1164011312+269424994012596731
ENST00000532677DPP3chr1166272245+ENST00000394540FKBP2chr1164011312+270024994012596731
ENST00000453114DPP3chr1166272245+ENST00000309366FKBP2chr1164011312+2296210352200731
ENST00000453114DPP3chr1166272245+ENST00000449942FKBP2chr1164011312+2298210352200731
ENST00000453114DPP3chr1166272245+ENST00000394540FKBP2chr1164011312+2304210352200731
ENST00000360510DPP3chr1166272245+ENST00000309366FKBP2chr1164011312+2299210652203732
ENST00000360510DPP3chr1166272245+ENST00000449942FKBP2chr1164011312+2301210652203732
ENST00000360510DPP3chr1166272245+ENST00000394540FKBP2chr1164011312+2307210652203732
ENST00000541961DPP3chr1166272245+ENST00000309366FKBP2chr1164011312+22902097562194712
ENST00000541961DPP3chr1166272245+ENST00000449942FKBP2chr1164011312+22922097562194712
ENST00000541961DPP3chr1166272245+ENST00000394540FKBP2chr1164011312+22982097562194712
ENST00000530165DPP3chr1166272245+ENST00000309366FKBP2chr1164011312+21771984332081682
ENST00000530165DPP3chr1166272245+ENST00000449942FKBP2chr1164011312+21791984332081682
ENST00000530165DPP3chr1166272245+ENST00000394540FKBP2chr1164011312+21851984332081682

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
ENST00000531863ENST00000309366DPP3chr1166272245+FKBP2chr1164011313+0.0062479710.99375206
ENST00000531863ENST00000449942DPP3chr1166272245+FKBP2chr1164011313+0.0062146950.99378526
ENST00000531863ENST00000394540DPP3chr1166272245+FKBP2chr1164011313+0.0061000130.99389994
ENST00000532677ENST00000309366DPP3chr1166272245+FKBP2chr1164011313+0.0049146080.9950854
ENST00000532677ENST00000449942DPP3chr1166272245+FKBP2chr1164011313+0.0048885210.9951115
ENST00000532677ENST00000394540DPP3chr1166272245+FKBP2chr1164011313+0.0047985570.99520147
ENST00000453114ENST00000309366DPP3chr1166272245+FKBP2chr1164011313+0.0068176820.99318236
ENST00000453114ENST00000449942DPP3chr1166272245+FKBP2chr1164011313+0.0067739810.993226
ENST00000453114ENST00000394540DPP3chr1166272245+FKBP2chr1164011313+0.0066677120.9933323
ENST00000360510ENST00000309366DPP3chr1166272245+FKBP2chr1164011313+0.0086810810.9913189
ENST00000360510ENST00000449942DPP3chr1166272245+FKBP2chr1164011313+0.0086218960.99137807
ENST00000360510ENST00000394540DPP3chr1166272245+FKBP2chr1164011313+0.0084789390.991521
ENST00000541961ENST00000309366DPP3chr1166272245+FKBP2chr1164011313+0.0058319010.99416804
ENST00000541961ENST00000449942DPP3chr1166272245+FKBP2chr1164011313+0.005798550.9942015
ENST00000541961ENST00000394540DPP3chr1166272245+FKBP2chr1164011313+0.0057066190.9942934
ENST00000530165ENST00000309366DPP3chr1166272245+FKBP2chr1164011313+0.0070925920.9929074
ENST00000530165ENST00000449942DPP3chr1166272245+FKBP2chr1164011313+0.0070521690.9929478
ENST00000530165ENST00000394540DPP3chr1166272245+FKBP2chr1164011313+0.0069438250.99305624
ENST00000531863ENST00000309366DPP3chr1166272245+FKBP2chr1164011312+0.0062479710.99375206
ENST00000531863ENST00000449942DPP3chr1166272245+FKBP2chr1164011312+0.0062146950.99378526
ENST00000531863ENST00000394540DPP3chr1166272245+FKBP2chr1164011312+0.0061000130.99389994
ENST00000532677ENST00000309366DPP3chr1166272245+FKBP2chr1164011312+0.0049146080.9950854
ENST00000532677ENST00000449942DPP3chr1166272245+FKBP2chr1164011312+0.0048885210.9951115
ENST00000532677ENST00000394540DPP3chr1166272245+FKBP2chr1164011312+0.0047985570.99520147
ENST00000453114ENST00000309366DPP3chr1166272245+FKBP2chr1164011312+0.0068176820.99318236
ENST00000453114ENST00000449942DPP3chr1166272245+FKBP2chr1164011312+0.0067739810.993226
ENST00000453114ENST00000394540DPP3chr1166272245+FKBP2chr1164011312+0.0066677120.9933323
ENST00000360510ENST00000309366DPP3chr1166272245+FKBP2chr1164011312+0.0086810810.9913189
ENST00000360510ENST00000449942DPP3chr1166272245+FKBP2chr1164011312+0.0086218960.99137807
ENST00000360510ENST00000394540DPP3chr1166272245+FKBP2chr1164011312+0.0084789390.991521
ENST00000541961ENST00000309366DPP3chr1166272245+FKBP2chr1164011312+0.0058319010.99416804
ENST00000541961ENST00000449942DPP3chr1166272245+FKBP2chr1164011312+0.005798550.9942015
ENST00000541961ENST00000394540DPP3chr1166272245+FKBP2chr1164011312+0.0057066190.9942934
ENST00000530165ENST00000309366DPP3chr1166272245+FKBP2chr1164011312+0.0070925920.9929074
ENST00000530165ENST00000449942DPP3chr1166272245+FKBP2chr1164011312+0.0070521690.9929478
ENST00000530165ENST00000394540DPP3chr1166272245+FKBP2chr1164011312+0.0069438250.99305624

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 DPP3-FKBP2

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
DPP3chr1166272245FKBP2chr11640113121984650SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113122097680SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113122103699SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113122106700SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113122499699SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113122502700SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113131984650SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113132097680SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113132103699SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113132106700SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113132499699SRKLIVQPNTRLEGYGERGAPPKIPG
DPP3chr1166272245FKBP2chr11640113132502700SRKLIVQPNTRLEGYGERGAPPKIPG

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Potential FusionNeoAntigen Information of DPP3-FKBP2 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.
DPP3-FKBP2_66272245_64011312.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)
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:01QPNTRLEGY0.96330.8618615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:08QPNTRLEGY0.95080.802615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:05QPNTRLEGY0.74560.5906615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:01VQPNTRLEGY0.99980.7436515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:25VQPNTRLEGY0.96690.8292515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:07VQPNTRLEGY0.9990.538515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:23QPNTRLEGY0.96450.816615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:77QPNTRLEGY0.96330.8618615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:20QPNTRLEGY0.96230.9167615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:24QPNTRLEGY0.92710.8339615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:11QPNTRLEGY0.91940.8502615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:30QPNTRLEGY0.8680.7664615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:17QPNTRLEGY0.8680.7664615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:11QPNTRLEGY0.33370.7003615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:08QPNTRLEGY0.33220.7092615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B35:43QPNTRLEGY0.28580.714615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B18:07QPNTRLEGY0.11030.7753615
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:125VQPNTRLEGY0.99980.7436515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:33VQPNTRLEGY0.99980.7436515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:27VQPNTRLEGY0.99980.7477515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:34VQPNTRLEGY0.99980.7436515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:50VQPNTRLEGY0.99970.7923515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:135VQPNTRLEGY0.99970.7416515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:35VQPNTRLEGY0.9990.7349515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:53VQPNTRLEGY0.99860.7151515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:12VQPNTRLEGY0.99810.7979515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:54VQPNTRLEGY0.98950.6684515
DPP3-FKBP2chr1166272245chr11640113122106HLA-B15:39VQPNTRLEGY0.97160.7392515

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Potential FusionNeoAntigen Information of DPP3-FKBP2 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.
DPP3-FKBP2_66272245_64011312.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)
DPP3-FKBP2chr1166272245chr11640113122106DRB1-0324KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-0324RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-0820KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1104KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1106KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1117KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1135KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1138KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1141KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1141RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1143KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1144KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1146KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1147KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1150KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1152KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1153KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1154KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1156KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1158KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1159KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1160KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1177KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1178KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1183KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1184KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1188KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1189KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1220SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1311KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1342KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1376KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1376RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1405KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1406SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1406RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1408KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1418KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1418RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1420SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1420RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1421KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1421RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1423KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1429SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1434KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1443KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1446SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1448SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1452SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1456KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1459KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1481SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1483SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1483RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1491KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1496KLIVQPNTRLEGYGE217
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1501SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1503NTRLEGYGERGAPPK823
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1503PNTRLEGYGERGAPP722
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1504SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1504NTRLEGYGERGAPPK823
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1505SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1506SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1507SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1509SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1510NTRLEGYGERGAPPK823
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1510SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1511SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1513SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1516SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1520SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1522SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1523NTRLEGYGERGAPPK823
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1523PNTRLEGYGERGAPP722
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1523SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1524SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1525SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1525RKLIVQPNTRLEGYG116
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1527SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1528SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1532SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1533SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1534SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1537SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1540SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1541SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1542SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1543SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1545SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1546SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1548SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1549SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1612SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB1-1615SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB3-0204SRKLIVQPNTRLEGY015
DPP3-FKBP2chr1166272245chr11640113122106DRB4-0104SRKLIVQPNTRLEGY015

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Fusion breakpoint peptide structures of DPP3-FKBP2

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
7466QPNTRLEGYGERGADPP3FKBP2chr1166272245chr11640113122106

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of DPP3-FKBP2

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-B14:023BVN7466QPNTRLEGYGERGA-6.47247-6.58587
HLA-B14:023BVN7466QPNTRLEGYGERGA-3.26921-4.30451
HLA-B52:013W397466QPNTRLEGYGERGA-5.92674-6.04014
HLA-B52:013W397466QPNTRLEGYGERGA-5.3598-6.3951
HLA-A11:014UQ27466QPNTRLEGYGERGA-7.28003-7.39343
HLA-A24:025HGA7466QPNTRLEGYGERGA-4.52753-5.56283
HLA-A24:025HGA7466QPNTRLEGYGERGA-4.40446-4.51786
HLA-B44:053DX87466QPNTRLEGYGERGA-7.17875-7.29215
HLA-B44:053DX87466QPNTRLEGYGERGA-3.53326-4.56856

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Vaccine Design for the FusionNeoAntigens of DPP3-FKBP2

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
DPP3-FKBP2chr1166272245chr1164011312515VQPNTRLEGYTTCAGCCCAACACTCGCCTTGAAGGGTATG
DPP3-FKBP2chr1166272245chr1164011312615QPNTRLEGYAGCCCAACACTCGCCTTGAAGGGTATG

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
DPP3-FKBP2chr1166272245chr1164011312015SRKLIVQPNTRLEGYCTCGGAAGCTCATTGTTCAGCCCAACACTCGCCTTGAAGGGTATG
DPP3-FKBP2chr1166272245chr1164011312116RKLIVQPNTRLEGYGGGAAGCTCATTGTTCAGCCCAACACTCGCCTTGAAGGGTATGGAG
DPP3-FKBP2chr1166272245chr1164011312217KLIVQPNTRLEGYGEAGCTCATTGTTCAGCCCAACACTCGCCTTGAAGGGTATGGAGAGC
DPP3-FKBP2chr1166272245chr1164011312722PNTRLEGYGERGAPPCCAACACTCGCCTTGAAGGGTATGGAGAGCGGGGAGCTCCCCCAA
DPP3-FKBP2chr1166272245chr1164011312823NTRLEGYGERGAPPKACACTCGCCTTGAAGGGTATGGAGAGCGGGGAGCTCCCCCAAAGA

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Information of the samples that have these potential fusion neoantigens of DPP3-FKBP2

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
LUADDPP3-FKBP2chr1166272245ENST00000360510chr1164011312ENST00000309366TCGA-97-A4M3

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Potential target of CAR-T therapy development for DPP3-FKBP2

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 DPP3-FKBP2

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 DPP3-FKBP2

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