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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:TMEM132B-CCT5

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: TMEM132B-CCT5
FusionPDB ID: 91640
FusionGDB2.0 ID: 91640
HgeneTgene
Gene symbol

TMEM132B

CCT5

Gene ID

114795

22948

Gene nametransmembrane protein 132Bchaperonin containing TCP1 subunit 5
Synonyms-CCT-epsilon|CCTE|HEL-S-69|PNAS-102|TCP-1-epsilon
Cytomap

12q24.31-q24.32

5p15.2

Type of geneprotein-codingprotein-coding
Descriptiontransmembrane protein 132BT-complex protein 1 subunit epsilonchaperonin containing TCP1, subunit 5 (epsilon)epididymis secretory protein Li 69
Modification date2020031320200313
UniProtAcc.

P48643

Main function of 5'-partner protein: FUNCTION: Component of the chaperonin-containing T-complex (TRiC), a molecular chaperone complex that assists the folding of proteins upon ATP hydrolysis (PubMed:25467444). The TRiC complex mediates the folding of WRAP53/TCAB1, thereby regulating telomere maintenance (PubMed:25467444). As part of the TRiC complex may play a role in the assembly of BBSome, a complex involved in ciliogenesis regulating transports vesicles to the cilia (PubMed:20080638). The TRiC complex plays a role in the folding of actin and tubulin (Probable). {ECO:0000269|PubMed:20080638, ECO:0000269|PubMed:25467444, ECO:0000305}.
Ensembl transtripts involved in fusion geneENST idsENST00000299308, ENST00000535886, 
ENST00000418253, 
ENST00000280326, 
ENST00000503026, ENST00000506600, 
ENST00000515390, ENST00000515676, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score4 X 3 X 3=3658 X 14 X 17=13804
# samples 461
** MAII scorelog2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(61/13804*10)=-4.50013332598527
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: TMEM132B [Title/Abstract] AND CCT5 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: TMEM132B [Title/Abstract] AND CCT5 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)TMEM132B(126137178)-CCT5(10260903), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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


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/chr12:126137178/chr5:10260903)
- 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 TMEM132B (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 CCT5 (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)
ENST00000299308TMEM132Bchr12126137178+ENST00000280326CCT5chr510260903+4481209982851947
ENST00000299308TMEM132Bchr12126137178+ENST00000503026CCT5chr510260903+3147209982851947
ENST00000299308TMEM132Bchr12126137178+ENST00000515390CCT5chr510260903+2994209982851947
ENST00000299308TMEM132Bchr12126137178+ENST00000515676CCT5chr510260903+2971209982851947
ENST00000299308TMEM132Bchr12126137178+ENST00000506600CCT5chr510260903+3080209982851947
ENST00000535886TMEM132Bchr12126137178+ENST00000280326CCT5chr510260903+3184802851554489
ENST00000535886TMEM132Bchr12126137178+ENST00000503026CCT5chr510260903+1850802851554489
ENST00000535886TMEM132Bchr12126137178+ENST00000515390CCT5chr510260903+1697802851554489
ENST00000535886TMEM132Bchr12126137178+ENST00000515676CCT5chr510260903+1674802851554489
ENST00000535886TMEM132Bchr12126137178+ENST00000506600CCT5chr510260903+1783802851554489

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
ENST00000299308ENST00000280326TMEM132Bchr12126137178+CCT5chr510260903+0.000284840.99971515
ENST00000299308ENST00000503026TMEM132Bchr12126137178+CCT5chr510260903+0.0005893580.9994106
ENST00000299308ENST00000515390TMEM132Bchr12126137178+CCT5chr510260903+0.0009135290.9990865
ENST00000299308ENST00000515676TMEM132Bchr12126137178+CCT5chr510260903+0.0010655720.99893445
ENST00000299308ENST00000506600TMEM132Bchr12126137178+CCT5chr510260903+0.0007465520.99925345
ENST00000535886ENST00000280326TMEM132Bchr12126137178+CCT5chr510260903+0.0007539920.999246
ENST00000535886ENST00000503026TMEM132Bchr12126137178+CCT5chr510260903+0.0015869230.9984131
ENST00000535886ENST00000515390TMEM132Bchr12126137178+CCT5chr510260903+0.0026673080.9973327
ENST00000535886ENST00000515676TMEM132Bchr12126137178+CCT5chr510260903+0.0029251670.99707484
ENST00000535886ENST00000506600TMEM132Bchr12126137178+CCT5chr510260903+0.0020372140.99796283

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 TMEM132B-CCT5

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
TMEM132Bchr12126137178CCT5chr5102609032099696STAAALDVLQSPQQIKETGANLAICQ
TMEM132Bchr12126137178CCT5chr510260903802238STAAALDVLQSPQQIKETGANLAICQ

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Potential FusionNeoAntigen Information of TMEM132B-CCT5 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.
TMEM132B-CCT5_126137178_10260903.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)
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:01DVLQSPQQI0.98670.5743615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B52:01DVLQSPQQI0.98370.9705615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:02DVLQSPQQI0.8940.6094615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B48:01QQIKETGANL0.96360.93111222
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:07DVLQSPQQI0.98580.9591615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:08DVLQSPQQI0.94450.6073615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B48:03QQIKETGANL0.85210.89191222
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B54:01SPQQIKETGA0.84270.55481020
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:21DVLQSPQQI0.99160.6237615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:14DVLQSPQQI0.98580.6078615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:13DVLQSPQQI0.98450.5996615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:06DVLQSPQQI0.98260.5706615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:09DVLQSPQQI0.97370.6431615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-A68:02DVLQSPQQI0.92550.6492615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-A25:01DVLQSPQQI0.90360.9513615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B51:29DVLQSPQQI0.76860.5648615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-A69:01DVLQSPQQI0.76370.5042615
TMEM132B-CCT5chr12126137178chr5102609032099HLA-A30:01VLQSPQQIK0.64980.7384716
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B15:73QQIKETGANL0.98010.99271222
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B15:30QQIKETGANL0.96320.98621222
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B40:12QQIKETGANL0.85210.89191222
TMEM132B-CCT5chr12126137178chr5102609032099HLA-B40:21QQIKETGANL0.6750.91821222

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Potential FusionNeoAntigen Information of TMEM132B-CCT5 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.
TMEM132B-CCT5_126137178_10260903.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)
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0413AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0440AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0440TAAALDVLQSPQQIK116
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0442AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0442TAAALDVLQSPQQIK116
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0444AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0453AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0455AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0456AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0456TAAALDVLQSPQQIK116
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0468AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0468TAAALDVLQSPQQIK116
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0470AAALDVLQSPQQIKE217
TMEM132B-CCT5chr12126137178chr5102609032099DRB1-0479AAALDVLQSPQQIKE217

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Fusion breakpoint peptide structures of TMEM132B-CCT5

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
1466DVLQSPQQIKETGATMEM132BCCT5chr12126137178chr5102609032099

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of TMEM132B-CCT5

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-B14:023BVN1466DVLQSPQQIKETGA-7.9953-8.11
HLA-B14:023BVN1466DVLQSPQQIKETGA-6.76387-7.80047
HLA-B52:013W391466DVLQSPQQIKETGA-6.72115-6.83585
HLA-B52:013W391466DVLQSPQQIKETGA-4.59437-5.63097
HLA-A24:025HGA1466DVLQSPQQIKETGA-8.73414-8.84884
HLA-A24:025HGA1466DVLQSPQQIKETGA-6.32039-7.35699
HLA-B44:053DX81466DVLQSPQQIKETGA-5.20472-5.31942
HLA-B44:053DX81466DVLQSPQQIKETGA-4.80907-5.84567
HLA-A02:016TDR1466DVLQSPQQIKETGA0.647201-0.389399

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Vaccine Design for the FusionNeoAntigens of TMEM132B-CCT5

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
TMEM132B-CCT5chr12126137178chr5102609031020SPQQIKETGACCACAGCAGATTAAAGAGACTGGTGCTAAC
TMEM132B-CCT5chr12126137178chr5102609031222QQIKETGANLCAGATTAAAGAGACTGGTGCTAACCTAGCA
TMEM132B-CCT5chr12126137178chr510260903615DVLQSPQQIGTTCTTCAGTCCCCACAGCAGATTAAA
TMEM132B-CCT5chr12126137178chr510260903716VLQSPQQIKCTTCAGTCCCCACAGCAGATTAAAGAG

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
TMEM132B-CCT5chr12126137178chr510260903116TAAALDVLQSPQQIKGCTGCTGCCCTGGATGTTCTTCAGTCCCCACAGCAGATTAAAGAG
TMEM132B-CCT5chr12126137178chr510260903217AAALDVLQSPQQIKEGCTGCCCTGGATGTTCTTCAGTCCCCACAGCAGATTAAAGAGACT

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Information of the samples that have these potential fusion neoantigens of TMEM132B-CCT5

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
Non-CancerTMEM132B-CCT5chr12126137178ENST00000299308chr510260903ENST00000280326135N

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Potential target of CAR-T therapy development for TMEM132B-CCT5

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 TMEM132B-CCT5

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 TMEM132B-CCT5

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