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level2

	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein Structure
	pLDDT scores
	Ramachandran Plot of Fusion Protein Structure
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:LYN-NTRK3

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: LYN-NTRK3
	FusionPDB ID: 50444
	FusionGDB2.0 ID: 50444
		Hgene	Tgene
	Gene symbol	LYN	NTRK3
	Gene ID	4067	4916
	Gene name	LYN proto-oncogene, Src family tyrosine kinase	neurotrophic receptor tyrosine kinase 3
	Synonyms	JTK8\|p53Lyn\|p56Lyn	GP145-TrkC\|TRKC\|gp145(trkC)
	Cytomap	8q12.1	15q25.3
	Type of gene	protein-coding	protein-coding
	Description	tyrosine-protein kinase Lynlck/Yes-related novel protein tyrosine kinasev-yes-1 Yamaguchi sarcoma viral related oncogene homolog	NT-3 growth factor receptorETS related protein-neurotrophic receptor tyrosine kinase fusion proteinETV6-NTRK3 fusionneurotrophic tyrosine kinase, receptor, type 3tyrosine kinase receptor C
	Modification date	20200327	20200313
	UniProtAcc	P0DP58	Q16288
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000519728, ENST00000520220, ENST00000420292,	ENST00000540489, ENST00000558306, ENST00000317501, ENST00000355254, ENST00000357724, ENST00000360948, ENST00000394480, ENST00000542733, ENST00000557856, ENST00000558676,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	11 X 7 X 7=539	15 X 19 X 11=3135
	# samples	13	15
	** MAII score	log2(13/539*10)=-2.05177364972405 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(15/3135*10)=-4.38543103719352 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: LYN [Title/Abstract] AND NTRK3 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	LYN(56866543)-NTRK3(88576276), # samples:4
Anticipated loss of major functional domain due to fusion event.	LYN-NTRK3 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. LYN-NTRK3 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. LYN-NTRK3 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. LYN-NTRK3 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	LYN	GO:0006468	protein phosphorylation	11517336
Hgene	LYN	GO:0006974	cellular response to DNA damage stimulus	10891478\|11517336
Hgene	LYN	GO:0018108	peptidyl-tyrosine phosphorylation	7682714\|11782428
Hgene	LYN	GO:0046777	protein autophosphorylation	7682714
Hgene	LYN	GO:0051272	positive regulation of cellular component movement	16467205
Hgene	LYN	GO:0070304	positive regulation of stress-activated protein kinase signaling cascade	10891478
Tgene	NTRK3	GO:0000187	activation of MAPK activity	23027130
Tgene	NTRK3	GO:0001933	negative regulation of protein phosphorylation	23027130
Tgene	NTRK3	GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	23027130
Tgene	NTRK3	GO:0008284	positive regulation of cell proliferation	23027130
Tgene	NTRK3	GO:0010628	positive regulation of gene expression	23027130
Tgene	NTRK3	GO:0030335	positive regulation of cell migration	23027130
Tgene	NTRK3	GO:0032148	activation of protein kinase B activity	23027130
Tgene	NTRK3	GO:0033138	positive regulation of peptidyl-serine phosphorylation	23027130
Tgene	NTRK3	GO:0050927	positive regulation of positive chemotaxis	23027130
Tgene	NTRK3	GO:0090630	activation of GTPase activity	23027130
Tgene	NTRK3	GO:2000251	positive regulation of actin cytoskeleton reorganization	23027130

Fusion gene breakpoints across LYN (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 NTRK3 (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 Gene Sample Information

Fusion gene information from FusionGDB2.0.

Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	HNSC	TCGA-CN-6997-01A	LYN	chr8	56866543	-	NTRK3	chr15	88576276	-
ChimerDB4	HNSC	TCGA-CN-6997-01A	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-
ChimerDB4	HNSC	TCGA-CN-6997	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-

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Fusion ORF Analysis

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)
ENST00000519728	LYN	chr8	56866543	+	ENST00000394480	NTRK3	chr15	88576276	-	4104	1086	50	2167	705
ENST00000519728	LYN	chr8	56866543	+	ENST00000557856	NTRK3	chr15	88576276	-	2312	1086	50	2167	705
ENST00000519728	LYN	chr8	56866543	+	ENST00000357724	NTRK3	chr15	88576276	-	2354	1086	50	2209	719
ENST00000519728	LYN	chr8	56866543	+	ENST00000355254	NTRK3	chr15	88576276	-	2312	1086	50	2167	705
ENST00000519728	LYN	chr8	56866543	+	ENST00000360948	NTRK3	chr15	88576276	-	2354	1086	50	2209	719
ENST00000519728	LYN	chr8	56866543	+	ENST00000542733	NTRK3	chr15	88576276	-	2111	1086	50	1837	595
ENST00000519728	LYN	chr8	56866543	+	ENST00000558676	NTRK3	chr15	88576276	-	2012	1086	50	1831	593
ENST00000519728	LYN	chr8	56866543	+	ENST00000317501	NTRK3	chr15	88576276	-	3507	1086	50	1528	492
ENST00000520220	LYN	chr8	56866543	+	ENST00000394480	NTRK3	chr15	88576276	-	4019	1001	28	2082	684
ENST00000520220	LYN	chr8	56866543	+	ENST00000557856	NTRK3	chr15	88576276	-	2227	1001	28	2082	684
ENST00000520220	LYN	chr8	56866543	+	ENST00000357724	NTRK3	chr15	88576276	-	2269	1001	28	2124	698
ENST00000520220	LYN	chr8	56866543	+	ENST00000355254	NTRK3	chr15	88576276	-	2227	1001	28	2082	684
ENST00000520220	LYN	chr8	56866543	+	ENST00000360948	NTRK3	chr15	88576276	-	2269	1001	28	2124	698
ENST00000520220	LYN	chr8	56866543	+	ENST00000542733	NTRK3	chr15	88576276	-	2026	1001	28	1752	574
ENST00000520220	LYN	chr8	56866543	+	ENST00000558676	NTRK3	chr15	88576276	-	1927	1001	28	1746	572
ENST00000520220	LYN	chr8	56866543	+	ENST00000317501	NTRK3	chr15	88576276	-	3422	1001	28	1443	471

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
ENST00000519728	ENST00000394480	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.002143365	0.9978567
ENST00000519728	ENST00000557856	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.004077036	0.9959229
ENST00000519728	ENST00000357724	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.004025368	0.9959746
ENST00000519728	ENST00000355254	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.004077036	0.9959229
ENST00000519728	ENST00000360948	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.004025368	0.9959746
ENST00000519728	ENST00000542733	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.003137542	0.99686253
ENST00000519728	ENST00000558676	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.003214735	0.9967853
ENST00000519728	ENST00000317501	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.001540971	0.998459
ENST00000520220	ENST00000394480	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.002049224	0.99795085
ENST00000520220	ENST00000557856	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.003645824	0.9963542
ENST00000520220	ENST00000357724	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.003797027	0.996203
ENST00000520220	ENST00000355254	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.003645824	0.9963542
ENST00000520220	ENST00000360948	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.003797027	0.996203
ENST00000520220	ENST00000542733	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.002131951	0.99786806
ENST00000520220	ENST00000558676	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.002190037	0.99780995
ENST00000520220	ENST00000317501	LYN	chr8	56866543	+	NTRK3	chr15	88576276	-	0.001231437	0.9987685

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Fusion Amino Acid Sequences

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

>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>50444_50444_1_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000317501_length(amino acids)=492AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTWVFSNIDNHGILNLKDNRDHLVPSTHYIYEEPEVQSGEVSYP

--------------------------------------------------------------

>50444_50444_2_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000355254_length(amino acids)=705AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA
VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA
SQIASGMVYLASQHFVHRDLATRNCLVGANLLVKIGDFGMSRDVYSTDYYRVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIF

--------------------------------------------------------------

>50444_50444_3_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000357724_length(amino acids)=719AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA
VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA
SQIASGMVYLASQHFVHRDLATRNCLVGANLLVKIGDFGMSRDVYSTDYYRLFNPSGNDFCIWCEVGGHTMLPIRWMPPESIMYRKFTTE

--------------------------------------------------------------

>50444_50444_4_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000360948_length(amino acids)=719AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA
VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA
SQIASGMVYLASQHFVHRDLATRNCLVGANLLVKIGDFGMSRDVYSTDYYRLFNPSGNDFCIWCEVGGHTMLPIRWMPPESIMYRKFTTE

--------------------------------------------------------------

>50444_50444_5_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000394480_length(amino acids)=705AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA
VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA
SQIASGMVYLASQHFVHRDLATRNCLVGANLLVKIGDFGMSRDVYSTDYYRVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIF

--------------------------------------------------------------

>50444_50444_6_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000542733_length(amino acids)=595AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA
VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA

--------------------------------------------------------------

>50444_50444_7_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000557856_length(amino acids)=705AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA
VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA
SQIASGMVYLASQHFVHRDLATRNCLVGANLLVKIGDFGMSRDVYSTDYYRVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIF

--------------------------------------------------------------

>50444_50444_8_LYN-NTRK3_LYN_chr8_56866543_ENST00000519728_NTRK3_chr15_88576276_ENST00000558676_length(amino acids)=593AA_BP=345
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE
WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL
DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP
LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA
VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA

--------------------------------------------------------------

>50444_50444_9_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000317501_length(amino acids)=471AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTWVFSNIDNHGILNLKDNRDHLVPSTHYIYEEPEVQSGEVSYPRSHGFREIMLNPISLPGHSKP

--------------------------------------------------------------

>50444_50444_10_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000355254_length(amino acids)=684AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAEL
LTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLA
TRNCLVGANLLVKIGDFGMSRDVYSTDYYRVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIFTYGKQPWFQLSNTEVIECITQ

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>50444_50444_11_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000357724_length(amino acids)=698AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAEL
LTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLA
TRNCLVGANLLVKIGDFGMSRDVYSTDYYRLFNPSGNDFCIWCEVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIFTYGKQPW

--------------------------------------------------------------

>50444_50444_12_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000360948_length(amino acids)=698AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAEL
LTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLA
TRNCLVGANLLVKIGDFGMSRDVYSTDYYRLFNPSGNDFCIWCEVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIFTYGKQPW

--------------------------------------------------------------

>50444_50444_13_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000394480_length(amino acids)=684AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAEL
LTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLA
TRNCLVGANLLVKIGDFGMSRDVYSTDYYRVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIFTYGKQPWFQLSNTEVIECITQ

--------------------------------------------------------------

>50444_50444_14_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000542733_length(amino acids)=574AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAEL
LTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLA

--------------------------------------------------------------

>50444_50444_15_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000557856_length(amino acids)=684AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAEL
LTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLA
TRNCLVGANLLVKIGDFGMSRDVYSTDYYRVGGHTMLPIRWMPPESIMYRKFTTESDVWSFGVILWEIFTYGKQPWFQLSNTEVIECITQ

--------------------------------------------------------------

>50444_50444_16_LYN-NTRK3_LYN_chr8_56866543_ENST00000520220_NTRK3_chr15_88576276_ENST00000558676_length(amino acids)=572AA_BP=324
MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG
KDSLSDDGVDLKTQPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGEWWKAKSLLTKKEGFIPSNYVA
KLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSLDNGGYYISPRITFPCISDMIK
HYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASPLHHINHGITTPSSLDAGPDTV
VIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVAVKALKDPTLAARKDFQREAEL
LTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIASQIASGMVYLASQHFVHRDLA

--------------------------------------------------------------

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Fusion Protein Functional Features

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr8:56866543/chr15:88576276)
- 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.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
LYN P0DP58	NTRK3 Q16288
FUNCTION: Acts in different tissues through interaction to nicotinic acetylcholine receptors (nAChRs) (PubMed:21252236). The proposed role as modulator of nAChR activity seems to be dependent on the nAChR subtype and stoichiometry, and to involve an effect on nAChR trafficking and its cell surface expression, and on single channel properties of the nAChR inserted in the plasma membrane. Modulates functional properties of nicotinic acetylcholine receptors (nAChRs) to prevent excessive excitation, and hence neurodegeneration. Enhances desensitization by increasing both the rate and extent of desensitization of alpha-4:beta-2-containing nAChRs and slowing recovery from desensitization. Promotes large amplitude ACh-evoked currents through alpha-4:beta-2 nAChRs. Is involved in regulation of the nAChR pentameric assembly in the endoplasmic reticulum. Shifts stoichiometry from high sensitivity alpha-4(2):beta-2(3) to low sensitivity alpha-4(3):beta-2(2) nAChR (By similarity). In vitro modulates alpha-3:beta-4-containing nAChRs. Reduces cell surface expression of (alpha-3:beta-4)(2):beta-4 and (alpha-3:beta-4)(2):alpha-5 nAChRs suggesting an interaction with nAChR alpha-3(-):(+)beta-4 subunit interfaces and an allosteric mode. Corresponding single channel effects characterized by decreased unitary conductance, altered burst proportions and enhanced desensitization/inactivation seem to depend on nAChR alpha:alpha subunit interfaces and are greater in (alpha-3:beta-2)(2):alpha-3 when compared to (alpha-3:beta-2)(2):alpha-5 nAChRs (PubMed:28100642). Prevents plasticity in the primary visual cortex late in life (By similarity). {ECO:0000250\|UniProtKB:P0DP60, ECO:0000269\|PubMed:21252236, ECO:0000269\|PubMed:28100642}.	FUNCTION: Receptor tyrosine kinase involved in nervous system and probably heart development. Upon binding of its ligand NTF3/neurotrophin-3, NTRK3 autophosphorylates and activates different signaling pathways, including the phosphatidylinositol 3-kinase/AKT and the MAPK pathways, that control cell survival and differentiation. {ECO:0000269\|PubMed:25196463}.

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, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at
download page
* Minus value of BPloci means that the break pointn is located before the CDS.

- Retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000519728

129_226

263.3333333333333

513.0

Domain

SH2

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000519728

63_123

263.3333333333333

513.0

Domain

SH3

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000520220

129_226

242.33333333333334

492.0

Domain

SH2

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000520220

63_123

242.33333333333334

492.0

Domain

SH3

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000519728

253_261

263.3333333333333

513.0

Nucleotide binding

ATP

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

538_839

465.3333333333333

613.0

Domain

Protein kinase

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

538_839

465.3333333333333

826.0

Domain

Protein kinase

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

538_839

465.3333333333333

840.0

Domain

Protein kinase

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

538_839

465.3333333333333

826.0

Domain

Protein kinase

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

538_839

465.3333333333333

613.0

Domain

Protein kinase

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

544_552

465.3333333333333

613.0

Nucleotide binding

ATP

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

544_552

465.3333333333333

826.0

Nucleotide binding

ATP

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

544_552

465.3333333333333

840.0

Nucleotide binding

ATP

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

544_552

465.3333333333333

826.0

Nucleotide binding

ATP

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

544_552

465.3333333333333

613.0

Nucleotide binding

ATP

- Not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000519728

247_501

263.3333333333333

513.0

Domain

Protein kinase

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000520220

247_501

242.33333333333334

492.0

Domain

Protein kinase

Hgene

LYN

chr8:56866543

chr15:88576276

ENST00000520220

253_261

242.33333333333334

492.0

Nucleotide binding

ATP

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

160_209

465.3333333333333

613.0

Domain

Note=LRRCT

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

210_300

465.3333333333333

613.0

Domain

Note=Ig-like C2-type 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

309_382

465.3333333333333

613.0

Domain

Note=Ig-like C2-type 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

160_209

465.3333333333333

826.0

Domain

Note=LRRCT

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

210_300

465.3333333333333

826.0

Domain

Note=Ig-like C2-type 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

309_382

465.3333333333333

826.0

Domain

Note=Ig-like C2-type 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

160_209

465.3333333333333

840.0

Domain

Note=LRRCT

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

210_300

465.3333333333333

840.0

Domain

Note=Ig-like C2-type 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

309_382

465.3333333333333

840.0

Domain

Note=Ig-like C2-type 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

160_209

465.3333333333333

826.0

Domain

Note=LRRCT

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

210_300

465.3333333333333

826.0

Domain

Note=Ig-like C2-type 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

309_382

465.3333333333333

826.0

Domain

Note=Ig-like C2-type 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

160_209

465.3333333333333

613.0

Domain

Note=LRRCT

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

210_300

465.3333333333333

613.0

Domain

Note=Ig-like C2-type 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

309_382

465.3333333333333

613.0

Domain

Note=Ig-like C2-type 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

104_125

465.3333333333333

613.0

Repeat

Note=LRR 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

128_149

465.3333333333333

613.0

Repeat

Note=LRR 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

104_125

465.3333333333333

826.0

Repeat

Note=LRR 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

128_149

465.3333333333333

826.0

Repeat

Note=LRR 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

104_125

465.3333333333333

840.0

Repeat

Note=LRR 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

128_149

465.3333333333333

840.0

Repeat

Note=LRR 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

104_125

465.3333333333333

826.0

Repeat

Note=LRR 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

128_149

465.3333333333333

826.0

Repeat

Note=LRR 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

104_125

465.3333333333333

613.0

Repeat

Note=LRR 1

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

128_149

465.3333333333333

613.0

Repeat

Note=LRR 2

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

32_429

465.3333333333333

613.0

Topological domain

Extracellular

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

454_839

465.3333333333333

613.0

Topological domain

Cytoplasmic

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

32_429

465.3333333333333

826.0

Topological domain

Extracellular

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

454_839

465.3333333333333

826.0

Topological domain

Cytoplasmic

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

32_429

465.3333333333333

840.0

Topological domain

Extracellular

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

454_839

465.3333333333333

840.0

Topological domain

Cytoplasmic

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

32_429

465.3333333333333

826.0

Topological domain

Extracellular

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

454_839

465.3333333333333

826.0

Topological domain

Cytoplasmic

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

32_429

465.3333333333333

613.0

Topological domain

Extracellular

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

454_839

465.3333333333333

613.0

Topological domain

Cytoplasmic

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000317501

430_453

465.3333333333333

613.0

Transmembrane

Helical

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000355254

430_453

465.3333333333333

826.0

Transmembrane

Helical

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000360948

430_453

465.3333333333333

840.0

Transmembrane

Helical

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000394480

430_453

465.3333333333333

826.0

Transmembrane

Helical

Tgene

NTRK3

chr8:56866543

chr15:88576276

ENST00000540489

430_453

465.3333333333333

613.0

Transmembrane

Helical

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Fusion Protein Structures

PDB and CIF files of the predicted fusion proteins
* Here we show the 3D structure of the fusion proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.

Fusion protein PDB link (fusion AA seq ID in FusionPDB)	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	AA seq	Len(AA seq)
PDB file >>>1463_LYN_56866543_NTRK3_88576276_ranked_0.pdb	LYN	56866543	56866543	ENST00000317501	NTRK3	chr15	88576276	-	MPLAPRPWRLRARRAAASSPRQAGRPRHPRPRASSPSPRVQRSRPAASPYAGPAGPPRRAPHSELKSPWSSAAPKLSPRAGNMGCIKSKG KDSLSDDGVDLKTQPVRNTERTIYVRDPTSNKQQRPVPESQLLPGQRFQTKDPEEQGDIVVALYPYDGIHPDDLSFKKGEKMKVLEEHGE WWKAKSLLTKKEGFIPSNYVAKLNTLETEEWFFKDITRKDAERQLLAPGNSAGAFLIRESETLKGSFSLSVRDFDPVHGDVIKHYKIRSL DNGGYYISPRITFPCISDMIKHYQKQADGLCRRLEKACISPKPQKPWDKDAWEIPRESIKLVKRLGAGQFGEVWMGPVAVISGEEDSASP LHHINHGITTPSSLDAGPDTVVIGMTRIPVIENPQYFRQGHNCHKPDTYVQHIKRRDIVLKRELGEGAFGKVFLAECYNLSPTKDKMLVA VKALKDPTLAARKDFQREAELLTNLQHEHIVKFYGVCGDGDPLIMVFEYMKHGDLNKFLRAHGPDAMILVDGQPRQAKGELGLSQMLHIA SQIASGMVYLASQHFVHRDLATRNCLVGANLLVKIGDFGMSRDVYSTDYYRLFNPSGNDFCIWCEVGGHTMLPIRWMPPESIMYRKFTTE	719

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pLDDT score distribution

pLDDT score distribution of the predicted wild-type structures of two partner proteins from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.

LYN_pLDDT.png

NTRK3_pLDDT.png

pLDDT score distribution of the predicted fusion protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.

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Ramachandran Plot of Fusion Protein Structure

Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this fusion protein peptide.

Fusion AA seq ID in FusionPDB and their Ramachandran plots

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Fusion Protein-Protein Interaction

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)

Gene	PPI interactors
NTRK3	NTF3, FRS2, SHC1, PLCG1, SQSTM1, PTPN1, APP, HSP90AA1, IRAK3, TNK2, NTRK1, SH3BP4, PTPRS, MYADM, C1GALT1, GNB2, C6orf120, MTOR, LGALS1, PTCD2, TMEM11, PAG1, EFR3A, TBC1D24, GNB4, TMEM192, INTS7, DENND4A, FAM171A2, KIAA0391, EPHA2, ATP7B, CXCR4, ACAD10, HRAS, EHD4, RPTOR, HEATR6, SLC39A11, NDFIP1, ERBB2, NELFB, HEY1, WDR13, KPNA4, NSD1, DOK6, SORT1, Ngfr, DDX58, UBE3C, LINGO1, NEU3, ACAD9,

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
LYN
NTRK3

- Retained interactions in fusion protein (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost interactions due to fusion (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

Top

Related Drugs to LYN-NTRK3

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 LYN-NTRK3

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
Tgene	NTRK3	C0036341	Schizophrenia	3	PSYGENET
Tgene	NTRK3	C0041696	Unipolar Depression	2	PSYGENET
Tgene	NTRK3	C1269683	Major Depressive Disorder	2	PSYGENET
Tgene	NTRK3	C1332965	Congenital Mesoblastic Nephroma	2	ORPHANET
Tgene	NTRK3	C0014175	Endometriosis	1	CTD_human
Tgene	NTRK3	C0017638	Glioma	1	CTD_human
Tgene	NTRK3	C0019569	Hirschsprung Disease	1	GENOMICS_ENGLAND
Tgene	NTRK3	C0023467	Leukemia, Myelocytic, Acute	1	CTD_human
Tgene	NTRK3	C0026998	Acute Myeloid Leukemia, M1	1	CTD_human
Tgene	NTRK3	C0038220	Status Epilepticus	1	CTD_human
Tgene	NTRK3	C0238463	Papillary thyroid carcinoma	1	ORPHANET
Tgene	NTRK3	C0259783	mixed gliomas	1	CTD_human
Tgene	NTRK3	C0269102	Endometrioma	1	CTD_human
Tgene	NTRK3	C0270823	Petit mal status	1	CTD_human
Tgene	NTRK3	C0311335	Grand Mal Status Epilepticus	1	CTD_human
Tgene	NTRK3	C0393734	Complex Partial Status Epilepticus	1	CTD_human
Tgene	NTRK3	C0525045	Mood Disorders	1	PSYGENET
Tgene	NTRK3	C0555198	Malignant Glioma	1	CTD_human
Tgene	NTRK3	C0751522	Status Epilepticus, Subclinical	1	CTD_human
Tgene	NTRK3	C0751523	Non-Convulsive Status Epilepticus	1	CTD_human
Tgene	NTRK3	C0751524	Simple Partial Status Epilepticus	1	CTD_human
Tgene	NTRK3	C1879321	Acute Myeloid Leukemia (AML-M2)	1	CTD_human