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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:PPP1R1B-ACLY

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: PPP1R1B-ACLY
FusionPDB ID: 67863
FusionGDB2.0 ID: 67863
HgeneTgene
Gene symbol

PPP1R1B

ACLY

Gene ID

84152

47

Gene nameprotein phosphatase 1 regulatory inhibitor subunit 1BATP citrate lyase
SynonymsDARPP-32|DARPP32ACL|ATPCL|CLATP
Cytomap

17q12

17q21.2

Type of geneprotein-codingprotein-coding
Descriptionprotein phosphatase 1 regulatory subunit 1Bdopamine and cAMP-regulated neuronal phosphoprotein 32ATP-citrate synthaseATP-citrate (pro-S-)-lyasecitrate cleavage enzyme
Modification date2020031320200313
UniProtAcc.

P53396

Main function of 5'-partner protein: FUNCTION: Catalyzes the cleavage of citrate into oxaloacetate and acetyl-CoA, the latter serving as common substrate for de novo cholesterol and fatty acid synthesis. {ECO:0000269|PubMed:10653665, ECO:0000269|PubMed:1371749, ECO:0000269|PubMed:19286649, ECO:0000269|PubMed:23932781, ECO:0000269|PubMed:9116495}.
Ensembl transtripts involved in fusion geneENST idsENST00000254079, ENST00000394265, 
ENST00000394267, ENST00000579000, 
ENST00000580825, 		ENST00000588779, 
ENST00000352035, ENST00000353196, 
ENST00000393896, ENST00000537919, 
ENST00000590151, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score11 X 11 X 6=72613 X 13 X 6=1014
# samples 1115
** MAII scorelog2(11/726*10)=-2.72246602447109
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(15/1014*10)=-2.75702324650746
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: PPP1R1B [Title/Abstract] AND ACLY [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: PPP1R1B [Title/Abstract] AND ACLY [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)PPP1R1B(37790339)-ACLY(40058066), # samples:2
Anticipated loss of major functional domain due to fusion event.PPP1R1B-ACLY 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.
PPP1R1B-ACLY 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.
PPP1R1B-ACLY 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.
PPP1R1B-ACLY 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.
PPP1R1B-ACLY seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
PPP1R1B-ACLY seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted 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
HgenePPP1R1B

GO:0032515

negative regulation of phosphoprotein phosphatase activity

10807923

TgeneACLY

GO:0006085

acetyl-CoA biosynthetic process

1371749

TgeneACLY

GO:0006101

citrate metabolic process

1371749

TgeneACLY

GO:0006107

oxaloacetate metabolic process

1371749

TgeneACLY

GO:0008610

lipid biosynthetic process

23932781



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/chr17:37790339/chr17:40058066)
- 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 PPP1R1B (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 ACLY (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)
ENST00000580825PPP1R1Bchr1737790339+ENST00000352035ACLYchr1740055038-37587332882855855
ENST00000580825PPP1R1Bchr1737790339+ENST00000590151ACLYchr1740055038-37497332882855855
ENST00000580825PPP1R1Bchr1737790339+ENST00000353196ACLYchr1740055038-37057332882825845
ENST00000580825PPP1R1Bchr1737790339+ENST00000537919ACLYchr1740055038-31807332882825845
ENST00000580825PPP1R1Bchr1737790339+ENST00000393896ACLYchr1740055038-30627332882825845
ENST00000254079PPP1R1Bchr1737790339+ENST00000352035ACLYchr1740055038-3939914430361010
ENST00000254079PPP1R1Bchr1737790339+ENST00000590151ACLYchr1740055038-3930914430361010
ENST00000254079PPP1R1Bchr1737790339+ENST00000353196ACLYchr1740055038-3886914430061000
ENST00000254079PPP1R1Bchr1737790339+ENST00000537919ACLYchr1740055038-3361914430061000
ENST00000254079PPP1R1Bchr1737790339+ENST00000393896ACLYchr1740055038-3243914430061000
ENST00000579000PPP1R1Bchr1737790339+ENST00000352035ACLYchr1740055038-35645391932661822
ENST00000579000PPP1R1Bchr1737790339+ENST00000590151ACLYchr1740055038-35555391932661822
ENST00000579000PPP1R1Bchr1737790339+ENST00000353196ACLYchr1740055038-35115391932631812
ENST00000579000PPP1R1Bchr1737790339+ENST00000537919ACLYchr1740055038-29865391932631812
ENST00000579000PPP1R1Bchr1737790339+ENST00000393896ACLYchr1740055038-28685391932631812
ENST00000394265PPP1R1Bchr1737790339+ENST00000352035ACLYchr1740055038-3514489502611853
ENST00000394265PPP1R1Bchr1737790339+ENST00000590151ACLYchr1740055038-3505489502611853
ENST00000394265PPP1R1Bchr1737790339+ENST00000353196ACLYchr1740055038-3461489502581843
ENST00000394265PPP1R1Bchr1737790339+ENST00000537919ACLYchr1740055038-2936489502581843
ENST00000394265PPP1R1Bchr1737790339+ENST00000393896ACLYchr1740055038-2818489502581843
ENST00000394267PPP1R1Bchr1737790339+ENST00000352035ACLYchr1740055038-35985732362695819
ENST00000394267PPP1R1Bchr1737790339+ENST00000590151ACLYchr1740055038-35895732362695819
ENST00000394267PPP1R1Bchr1737790339+ENST00000353196ACLYchr1740055038-35455732362665809
ENST00000394267PPP1R1Bchr1737790339+ENST00000537919ACLYchr1740055038-30205732362665809
ENST00000394267PPP1R1Bchr1737790339+ENST00000393896ACLYchr1740055038-29025732362665809

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
ENST00000580825ENST00000352035PPP1R1Bchr1737790339+ACLYchr1740055038-0.0021057880.9978942
ENST00000580825ENST00000590151PPP1R1Bchr1737790339+ACLYchr1740055038-0.0020989350.9979011
ENST00000580825ENST00000353196PPP1R1Bchr1737790339+ACLYchr1740055038-0.0019409450.9980591
ENST00000580825ENST00000537919PPP1R1Bchr1737790339+ACLYchr1740055038-0.0051101210.99488986
ENST00000580825ENST00000393896PPP1R1Bchr1737790339+ACLYchr1740055038-0.005792280.99420774
ENST00000254079ENST00000352035PPP1R1Bchr1737790339+ACLYchr1740055038-0.0021898840.9978102
ENST00000254079ENST00000590151PPP1R1Bchr1737790339+ACLYchr1740055038-0.0021707870.99782914
ENST00000254079ENST00000353196PPP1R1Bchr1737790339+ACLYchr1740055038-0.0020129110.99798703
ENST00000254079ENST00000537919PPP1R1Bchr1737790339+ACLYchr1740055038-0.0048852850.9951147
ENST00000254079ENST00000393896PPP1R1Bchr1737790339+ACLYchr1740055038-0.0051857850.9948143
ENST00000579000ENST00000352035PPP1R1Bchr1737790339+ACLYchr1740055038-0.0022888420.9977112
ENST00000579000ENST00000590151PPP1R1Bchr1737790339+ACLYchr1740055038-0.0022856510.9977144
ENST00000579000ENST00000353196PPP1R1Bchr1737790339+ACLYchr1740055038-0.0020418090.9979582
ENST00000579000ENST00000537919PPP1R1Bchr1737790339+ACLYchr1740055038-0.0045546190.9954454
ENST00000579000ENST00000393896PPP1R1Bchr1737790339+ACLYchr1740055038-0.00598790.99401206
ENST00000394265ENST00000352035PPP1R1Bchr1737790339+ACLYchr1740055038-0.0009968430.99900323
ENST00000394265ENST00000590151PPP1R1Bchr1737790339+ACLYchr1740055038-0.0009917890.99900824
ENST00000394265ENST00000353196PPP1R1Bchr1737790339+ACLYchr1740055038-0.0008142130.99918574
ENST00000394265ENST00000537919PPP1R1Bchr1737790339+ACLYchr1740055038-0.0024025110.9975975
ENST00000394265ENST00000393896PPP1R1Bchr1737790339+ACLYchr1740055038-0.0027553230.9972447
ENST00000394267ENST00000352035PPP1R1Bchr1737790339+ACLYchr1740055038-0.0010481430.9989518
ENST00000394267ENST00000590151PPP1R1Bchr1737790339+ACLYchr1740055038-0.0010389890.998961
ENST00000394267ENST00000353196PPP1R1Bchr1737790339+ACLYchr1740055038-0.0008604740.99913955
ENST00000394267ENST00000537919PPP1R1Bchr1737790339+ACLYchr1740055038-0.0025141050.9974859
ENST00000394267ENST00000393896PPP1R1Bchr1737790339+ACLYchr1740055038-0.0028906690.99710935

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 PPP1R1B-ACLY

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
PPP1R1Bchr1737790339ACLYchr1740055038489146DSQAEVLKVIRQSGKTTGIPIHVFGT
PPP1R1Bchr1737790339ACLYchr1740055038539115DSQAEVLKVIRQSGKTTGIPIHVFGT
PPP1R1Bchr1737790339ACLYchr1740055038573112DSQAEVLKVIRQSGKTTGIPIHVFGT
PPP1R1Bchr1737790339ACLYchr1740055038733148DSQAEVLKVIRQSGKTTGIPIHVFGT
PPP1R1Bchr1737790339ACLYchr1740055038914303DSQAEVLKVIRQSGKTTGIPIHVFGT

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Potential FusionNeoAntigen Information of PPP1R1B-ACLY 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.
PPP1R1B-ACLY_37790339_40055038.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)
PPP1R1B-ACLYchr1737790339chr1740055038914HLA-B13:01RQSGKTTGI0.44750.81221019
PPP1R1B-ACLYchr1737790339chr1740055038914HLA-B39:08RQSGKTTGI0.39560.7421019
PPP1R1B-ACLYchr1737790339chr1740055038914HLA-B15:73RQSGKTTGI0.82130.65021019
PPP1R1B-ACLYchr1737790339chr1740055038914HLA-B15:30RQSGKTTGI0.67150.77871019
PPP1R1B-ACLYchr1737790339chr1740055038914HLA-B39:02RQSGKTTGI0.29640.71311019

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Potential FusionNeoAntigen Information of PPP1R1B-ACLY 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.
PPP1R1B-ACLY_37790339_40055038.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)
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0804QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0804SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0820QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0820SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0828QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0828SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0831QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-0831SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1103QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1104QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1104SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1106QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1106SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1118QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1118SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1125QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1125SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1135QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1135SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1138QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1138SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1141QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1142QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1142SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1143QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1143SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1144QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1144SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1146QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1146SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1147QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1147SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1150QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1150SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1154QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1154SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1156QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1156SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1157QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1157SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1158QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1158SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1160QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1160SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1163QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1167QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1167SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1176QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1177QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1177SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1178QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1178SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1183QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1183SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1184QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1184SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1185QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1188QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1188SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1189QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1189SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1192QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1192SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1306QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1306SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1309QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1311QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1311SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1318QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1318SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1324QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1342QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1342SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1412QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1412SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1415QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1415SQAEVLKVIRQSGKT116
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1437QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1484QAEVLKVIRQSGKTT217
PPP1R1B-ACLYchr1737790339chr1740055038914DRB1-1484SQAEVLKVIRQSGKT116

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Fusion breakpoint peptide structures of PPP1R1B-ACLY

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
5188LKVIRQSGKTTGIPPPP1R1BACLYchr1737790339chr1740055038914

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of PPP1R1B-ACLY

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-B14:023BVN5188LKVIRQSGKTTGIP-7.9962-8.1096
HLA-B14:023BVN5188LKVIRQSGKTTGIP-5.70842-6.74372
HLA-B52:013W395188LKVIRQSGKTTGIP-6.83737-6.95077
HLA-B52:013W395188LKVIRQSGKTTGIP-4.4836-5.5189
HLA-A11:014UQ25188LKVIRQSGKTTGIP-10.0067-10.1201
HLA-A11:014UQ25188LKVIRQSGKTTGIP-9.03915-10.0745
HLA-A24:025HGA5188LKVIRQSGKTTGIP-6.56204-6.67544
HLA-A24:025HGA5188LKVIRQSGKTTGIP-5.42271-6.45801
HLA-B44:053DX85188LKVIRQSGKTTGIP-7.85648-8.89178
HLA-B44:053DX85188LKVIRQSGKTTGIP-5.3978-5.5112
HLA-A02:016TDR5188LKVIRQSGKTTGIP-3.37154-4.40684

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Vaccine Design for the FusionNeoAntigens of PPP1R1B-ACLY

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
PPP1R1B-ACLYchr1737790339chr17400550381019RQSGKTTGIGGCAGTCTGGGAAGACCACTGGGATCC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
PPP1R1B-ACLYchr1737790339chr1740055038116SQAEVLKVIRQSGKTGCCAGGCTGAAGTCCTGAAGGTCATCAGGCAGTCTGGGAAGACCA
PPP1R1B-ACLYchr1737790339chr1740055038217QAEVLKVIRQSGKTTAGGCTGAAGTCCTGAAGGTCATCAGGCAGTCTGGGAAGACCACTG

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Information of the samples that have these potential fusion neoantigens of PPP1R1B-ACLY

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
STADPPP1R1B-ACLYchr1737790339ENST00000254079chr1740055038ENST00000352035TCGA-VQ-A91X-01A

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Potential target of CAR-T therapy development for PPP1R1B-ACLY

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 PPP1R1B-ACLY

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 PPP1R1B-ACLY

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