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Fusion Protein:BAZ1B-ZP3

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: BAZ1B-ZP3
	FusionPDB ID: 9034
	FusionGDB2.0 ID: 9034
		Hgene	Tgene
	Gene symbol	BAZ1B	ZP3
	Gene ID	9031	7784
	Gene name	bromodomain adjacent to zinc finger domain 1B	zona pellucida glycoprotein 3
	Synonyms	WBSCR10\|WBSCR9\|WSTF	OOMD3\|ZP3A\|ZP3B\|ZPC\|Zp-3
	Cytomap	7q11.23	7q11.23
	Type of gene	protein-coding	protein-coding
	Description	tyrosine-protein kinase BAZ1BhWALp2transcription factor WSTFwilliams syndrome transcription factorwilliams-Beuren syndrome chromosomal region 10 proteinwilliams-Beuren syndrome chromosomal region 9 protein	zona pellucida sperm-binding protein 3ZP3A/ZP3Bsperm receptorzona pellucida glycoprotein 3Bzona pellucida glycoprotein ZP3zona pellucida protein C
	Modification date	20200313	20200313
	UniProtAcc	Q9UIG0 Main function of 5'-partner protein: FUNCTION: Atypical tyrosine-protein kinase that plays a central role in chromatin remodeling and acts as a transcription regulator. Involved in DNA damage response by phosphorylating 'Tyr-142' of histone H2AX (H2AXY142ph). H2AXY142ph plays a central role in DNA repair and acts as a mark that distinguishes between apoptotic and repair responses to genotoxic stress. Essential component of the WICH complex, a chromatin remodeling complex that mobilizes nucleosomes and reconfigures irregular chromatin to a regular nucleosomal array structure. The WICH complex regulates the transcription of various genes, has a role in RNA polymerase I and RNA polymerase III transcription, mediates the histone H2AX phosphorylation at 'Tyr-142', and is involved in the maintenance of chromatin structures during DNA replication processes. In the complex, it mediates the recruitment of the WICH complex to replication foci during DNA replication. {ECO:0000269\|PubMed:11980720, ECO:0000269\|PubMed:15543136, ECO:0000269\|PubMed:16603771, ECO:0000269\|PubMed:19092802, ECO:0000269\|PubMed:19234442}.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000339594, ENST00000404251,	ENST00000467555, ENST00000336517, ENST00000394857, ENST00000416245,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	14 X 17 X 6=1428	9 X 10 X 9=810
	# samples	20	14
	** MAII score	log2(20/1428*10)=-2.83592407425437 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(14/810*10)=-2.53249508082702 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: BAZ1B [Title/Abstract] AND ZP3 [Title/Abstract] AND fusion [Title/Abstract]
Fusion neoantigen context	PubMed: BAZ1B [Title/Abstract] AND ZP3 [Title/Abstract] AND neoantigen [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	BAZ1B(72873866)-ZP3(76069567), # samples:2
Anticipated loss of major functional domain due to fusion event.	BAZ1B-ZP3 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. BAZ1B-ZP3 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. BAZ1B-ZP3 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. BAZ1B-ZP3 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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	BAZ1B	GO:0006974	cellular response to DNA damage stimulus	19092802
Hgene	BAZ1B	GO:0016572	histone phosphorylation	19092802
Tgene	ZP3	GO:0002922	positive regulation of humoral immune response	19004505
Tgene	ZP3	GO:0007339	binding of sperm to zona pellucida	19246320\|19700799
Tgene	ZP3	GO:2000344	positive regulation of acrosome reaction	11751269\|18667750\|20394732
Tgene	ZP3	GO:2000360	negative regulation of binding of sperm to zona pellucida	18667750
Tgene	ZP3	GO:2000368	positive regulation of acrosomal vesicle exocytosis	19246320

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr7:72873866/chr7:76069567)
- 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.

Retention 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.

Fusion gene breakpoints across BAZ1B (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across ZP3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Amino Acid Sequences

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000339594	BAZ1B	chr7	72873866	-	ENST00000336517	ZP3	chr7	76069567	+	4230	3771	168	4214	1348
ENST00000339594	BAZ1B	chr7	72873866	-	ENST00000394857	ZP3	chr7	76069567	+	4230	3771	168	4214	1348
ENST00000339594	BAZ1B	chr7	72873866	-	ENST00000416245	ZP3	chr7	76069567	+	4221	3771	168	4214	1348
ENST00000404251	BAZ1B	chr7	72873866	-	ENST00000336517	ZP3	chr7	76069567	+	4236	3777	174	4220	1348
ENST00000404251	BAZ1B	chr7	72873866	-	ENST00000394857	ZP3	chr7	76069567	+	4236	3777	174	4220	1348
ENST00000404251	BAZ1B	chr7	72873866	-	ENST00000416245	ZP3	chr7	76069567	+	4227	3777	174	4220	1348
ENST00000339594	BAZ1B	chr7	72873865	-	ENST00000336517	ZP3	chr7	76069566	+	4230	3771	168	4214	1348
ENST00000339594	BAZ1B	chr7	72873865	-	ENST00000394857	ZP3	chr7	76069566	+	4230	3771	168	4214	1348
ENST00000339594	BAZ1B	chr7	72873865	-	ENST00000416245	ZP3	chr7	76069566	+	4221	3771	168	4214	1348
ENST00000404251	BAZ1B	chr7	72873865	-	ENST00000336517	ZP3	chr7	76069566	+	4236	3777	174	4220	1348
ENST00000404251	BAZ1B	chr7	72873865	-	ENST00000394857	ZP3	chr7	76069566	+	4236	3777	174	4220	1348
ENST00000404251	BAZ1B	chr7	72873865	-	ENST00000416245	ZP3	chr7	76069566	+	4227	3777	174	4220	1348

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000339594	ENST00000336517	BAZ1B	chr7	72873866	-	ZP3	chr7	76069567	+	0.001233665	0.9987663
ENST00000339594	ENST00000394857	BAZ1B	chr7	72873866	-	ZP3	chr7	76069567	+	0.001233665	0.9987663
ENST00000339594	ENST00000416245	BAZ1B	chr7	72873866	-	ZP3	chr7	76069567	+	0.00123081	0.9987691
ENST00000404251	ENST00000336517	BAZ1B	chr7	72873866	-	ZP3	chr7	76069567	+	0.001225271	0.9987747
ENST00000404251	ENST00000394857	BAZ1B	chr7	72873866	-	ZP3	chr7	76069567	+	0.001225271	0.9987747
ENST00000404251	ENST00000416245	BAZ1B	chr7	72873866	-	ZP3	chr7	76069567	+	0.001222386	0.99877757
ENST00000339594	ENST00000336517	BAZ1B	chr7	72873865	-	ZP3	chr7	76069566	+	0.001233665	0.9987663
ENST00000339594	ENST00000394857	BAZ1B	chr7	72873865	-	ZP3	chr7	76069566	+	0.001233665	0.9987663
ENST00000339594	ENST00000416245	BAZ1B	chr7	72873865	-	ZP3	chr7	76069566	+	0.00123081	0.9987691
ENST00000404251	ENST00000336517	BAZ1B	chr7	72873865	-	ZP3	chr7	76069566	+	0.001225271	0.9987747
ENST00000404251	ENST00000394857	BAZ1B	chr7	72873865	-	ZP3	chr7	76069566	+	0.001225271	0.9987747
ENST00000404251	ENST00000416245	BAZ1B	chr7	72873865	-	ZP3	chr7	76069566	+	0.001222386	0.99877757

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 BAZ1B-ZP3

+/-13 AA sequence from the breakpoints of the fusion protein sequences.

Hgene	Hchr	Hbp	Tgene	Tchr	Tbp	Length(fusion protein)	BP in fusion protein	Peptide
BAZ1B	chr7	72873865	ZP3	chr7	76069566	3771	1201	EVDEEKKMVEEAKIYITCHLKVTLAE
BAZ1B	chr7	72873865	ZP3	chr7	76069566	3777	1201	EVDEEKKMVEEAKIYITCHLKVTLAE
BAZ1B	chr7	72873866	ZP3	chr7	76069567	3771	1201	EVDEEKKMVEEAKIYITCHLKVTLAE
BAZ1B	chr7	72873866	ZP3	chr7	76069567	3777	1201	EVDEEKKMVEEAKIYITCHLKVTLAE

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Potential FusionNeoAntigen Information of BAZ1B-ZP3 in HLA I

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.

BAZ1B-ZP3_72873865_76069566.msa

Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)

Fusion gene	Hchr	Hbp	Tgene	Tchr	Tbp	HLA I	FusionNeoAntigen peptide	Binding score	Immunogenic score	Neoantigen start (at BP 13)	Neoantigen end (at BP 13)
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:01	KMVEEAKIY	0.9986	0.9533	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-A30:08	KIYITCHLK	0.9957	0.688	12	21
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B45:01	EEAKIYITC	0.9903	0.7774	9	18
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:25	KMVEEAKIY	0.9641	0.9338	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:02	KMVEEAKIY	0.9347	0.9373	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B18:01	EEAKIYITC	0.8181	0.827	9	18
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:03	KMVEEAKIY	0.5786	0.829	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B41:01	EEAKIYITC	0.4163	0.7746	9	18
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:01	KKMVEEAKIY	0.9624	0.9354	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:03	KKMVEEAKIY	0.9114	0.8024	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:25	KKMVEEAKIY	0.8998	0.9117	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-C05:09	MVEEAKIYI	0.9994	0.9357	7	16
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:07	KMVEEAKIY	0.9949	0.8312	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-C04:06	MVEEAKIYI	0.9457	0.9064	7	16
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:21	KMVEEAKIY	0.9352	0.9316	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:05	KMVEEAKIY	0.8354	0.9125	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:04	KMVEEAKIY	0.7638	0.9458	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:31	KMVEEAKIY	0.7178	0.9179	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:07	KKMVEEAKIY	0.9536	0.8147	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-C04:03	MVEEAKIYI	0.9995	0.8202	7	16
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-C05:01	MVEEAKIYI	0.9994	0.9357	7	16
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:33	KMVEEAKIY	0.9986	0.9533	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:27	KMVEEAKIY	0.9986	0.9668	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:125	KMVEEAKIY	0.9986	0.9533	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:34	KMVEEAKIY	0.9986	0.9533	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:135	KMVEEAKIY	0.9983	0.9496	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:50	KMVEEAKIY	0.9978	0.9568	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-A30:01	KIYITCHLK	0.9959	0.8027	12	21
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:24	KMVEEAKIY	0.9952	0.9456	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:35	KMVEEAKIY	0.9949	0.9485	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:12	KMVEEAKIY	0.9943	0.8502	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:53	KMVEEAKIY	0.9775	0.9358	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:39	KMVEEAKIY	0.972	0.8877	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-A68:02	MVEEAKIYI	0.9382	0.5536	7	16
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-A69:01	MVEEAKIYI	0.8733	0.7459	7	16
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B18:08	EEAKIYITC	0.8375	0.7424	9	18
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:20	KMVEEAKIY	0.8358	0.9395	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B18:05	EEAKIYITC	0.8181	0.827	9	18
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:54	KMVEEAKIY	0.801	0.9213	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B18:06	EEAKIYITC	0.7955	0.8431	9	18
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B35:28	KMVEEAKIY	0.7659	0.9375	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B18:03	EEAKIYITC	0.7643	0.8166	9	18
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B35:20	KMVEEAKIY	0.7064	0.9414	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:68	KMVEEAKIY	0.388	0.7037	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B48:02	KMVEEAKIY	0.3627	0.9231	6	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:34	KKMVEEAKIY	0.9624	0.9354	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:125	KKMVEEAKIY	0.9624	0.9354	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:33	KKMVEEAKIY	0.9624	0.9354	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:27	KKMVEEAKIY	0.9602	0.9555	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:135	KKMVEEAKIY	0.9568	0.9295	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:50	KKMVEEAKIY	0.9486	0.9277	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:35	KKMVEEAKIY	0.9459	0.932	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:12	KKMVEEAKIY	0.9252	0.8225	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:54	KKMVEEAKIY	0.913	0.8975	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:39	KKMVEEAKIY	0.9047	0.8642	5	15
BAZ1B-ZP3	chr7	72873865	chr7	76069566	3771	HLA-B15:68	KKMVEEAKIY	0.8425	0.6989	5	15

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Potential FusionNeoAntigen Information of BAZ1B-ZP3 in HLA II

Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).

Fusion gene

Hchr

Hbp

Tgene

Tchr

Tbp

HLA II

FusionNeoAntigen peptide

Neoantigen start (at BP 13)

Neoantigen end (at BP 13)

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Fusion breakpoint peptide structures of BAZ1B-ZP3

3D 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 name	BPseq	Hgene	Tgene	Hchr	Hbp	Tchr	Tbp	AAlen
4441	KMVEEAKIYITCHL	BAZ1B	ZP3	chr7	72873865	chr7	76069566	3771

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of BAZ1B-ZP3

Virtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.

HLA allele	PDB ID	File name	BPseq	Docking score	Glide score
HLA-B14:02	3BVN	4441	KMVEEAKIYITCHL	-7.9962	-8.1096
HLA-B14:02	3BVN	4441	KMVEEAKIYITCHL	-5.70842	-6.74372
HLA-B52:01	3W39	4441	KMVEEAKIYITCHL	-6.83737	-6.95077
HLA-B52:01	3W39	4441	KMVEEAKIYITCHL	-4.4836	-5.5189
HLA-A11:01	4UQ2	4441	KMVEEAKIYITCHL	-10.0067	-10.1201
HLA-A11:01	4UQ2	4441	KMVEEAKIYITCHL	-9.03915	-10.0745
HLA-A24:02	5HGA	4441	KMVEEAKIYITCHL	-6.56204	-6.67544
HLA-A24:02	5HGA	4441	KMVEEAKIYITCHL	-5.42271	-6.45801
HLA-B44:05	3DX8	4441	KMVEEAKIYITCHL	-7.85648	-8.89178
HLA-B44:05	3DX8	4441	KMVEEAKIYITCHL	-5.3978	-5.5112
HLA-A02:01	6TDR	4441	KMVEEAKIYITCHL	-3.37154	-4.40684

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Vaccine Design for the FusionNeoAntigens of BAZ1B-ZP3

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.

Fusion gene	Hchr	Hbp	Tchr	Tbp	Start in +/-13AA	End in +/-13AA	FusionNeoAntigen peptide sequence	FusionNeoAntigen RNA sequence
BAZ1B-ZP3	chr7	72873865	chr7	76069566	12	21	KIYITCHLK	AAGATATACATCACCTGCCACCTGAAG
BAZ1B-ZP3	chr7	72873865	chr7	76069566	5	15	KKMVEEAKIY	AAGAAAATGGTAGAGGAAGCAAAGATATAC
BAZ1B-ZP3	chr7	72873865	chr7	76069566	6	15	KMVEEAKIY	AAAATGGTAGAGGAAGCAAAGATATAC
BAZ1B-ZP3	chr7	72873865	chr7	76069566	7	16	MVEEAKIYI	ATGGTAGAGGAAGCAAAGATATACATC
BAZ1B-ZP3	chr7	72873865	chr7	76069566	9	18	EEAKIYITC	GAGGAAGCAAAGATATACATCACCTGC

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.

Fusion gene

Hchr

Hbp

Tchr

Tbp

Start in +/-13AA

End in +/-13AA

FusionNeoAntigen peptide

FusionNEoAntigen RNA sequence

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Information of the samples that have these potential fusion neoantigens of BAZ1B-ZP3

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 type	Fusion gene	Hchr	Hbp	Henst	Tchr	Tbp	Tenst	Sample
PRAD	BAZ1B-ZP3	chr7	72873865	ENST00000339594	chr7	76069566	ENST00000336517	TCGA-HC-8265

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Potential target of CAR-T therapy development for BAZ1B-ZP3

Predicted 3D structure. We used RoseTTAFold.

Retention 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'.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Tgene

ZP3

chr7:72873865

chr7:76069566

ENST00000336517

388_408

374.0

Transmembrane

Helical

Tgene

ZP3

chr7:72873865

chr7:76069566

ENST00000394857

388_408

425.0

Transmembrane

Helical

Tgene

ZP3

chr7:72873866

chr7:76069567

ENST00000336517

388_408

374.0

Transmembrane

Helical

Tgene

ZP3

chr7:72873866

chr7:76069567

ENST00000394857

388_408

425.0

Transmembrane

Helical

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.

Hgene

Hchr

Hbp

Henst

Tgene

Tchr

Tbp

Tenst

DeepLoc result

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Related Drugs to BAZ1B-ZP3

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

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to BAZ1B-ZP3

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

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source

	Fusion Gene and Fusion Protein Summary
	Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)
	Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)
	Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)
	Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)
	Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)
	Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)
	Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)
	Potential target of CAR-T therapy development
	Information on the samples that have these potential fusion neoantigens
	Fusion Protein Targeting Drugs - (Manual Curation)
	Fusion Protein Related diseases - (Manual Curation)