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	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:PTPRA-SDAD1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: PTPRA-SDAD1
	FusionPDB ID: 70322
	FusionGDB2.0 ID: 70322
		Hgene	Tgene
	Gene symbol	PTPRA	SDAD1
	Gene ID	5786	55153
	Gene name	protein tyrosine phosphatase receptor type A	SDA1 domain containing 1
	Synonyms	HEPTP\|HLPR\|HPTPA\|HPTPalpha\|LRP\|PTPA\|PTPRL2\|R-PTP-alpha\|RPTPA	-
	Cytomap	20p13	4q21.1
	Type of gene	protein-coding	protein-coding
	Description	receptor-type tyrosine-protein phosphatase alphaLeukocyte common antigen-related peptide (protein tyrosine phosphate)PTPLCA-related phosphatasePTPase-alphaprotein tyrosine phosphatase, receptor type, alpha polypeptideprotein-tyrosine phosphatase alph	protein SDA1 homologSDA1 domain-containing protein 1nucleolar protein 130
	Modification date	20200327	20200313
	UniProtAcc	.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000216877, ENST00000318266, ENST00000356147, ENST00000358719, ENST00000380393, ENST00000399903, ENST00000425918,	ENST00000513089, ENST00000356260, ENST00000395711,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	14 X 11 X 10=1540	2 X 2 X 2=8
	# samples	16	2
	** MAII score	log2(16/1540*10)=-3.2667865406949 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(2/8*10)=1.32192809488736
Context (manual curation of fusion genes in FusionPDB)	PubMed: PTPRA [Title/Abstract] AND SDAD1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	PTPRA(3018775)-SDAD1(76879094), # samples:2
Anticipated loss of major functional domain due to fusion event.	PTPRA-SDAD1 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. PTPRA-SDAD1 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. PTPRA-SDAD1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. PTPRA-SDAD1 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF. PTPRA-SDAD1 seems lost the major protein functional domain in Tgene partner, which is a essential 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)

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

Fusion gene breakpoints across PTPRA (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 SDAD1 (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	LUSC	TCGA-22-A5C4-01A	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-
ChimerDB4	LUSC	TCGA-22-A5C4	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-

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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)
ENST00000380393	PTPRA	chr20	3018775	+	ENST00000356260	SDAD1	chr4	76879094	-	4980	3565	686	3073	795
ENST00000380393	PTPRA	chr20	3018775	+	ENST00000395711	SDAD1	chr4	76879094	-	4610	3565	686	3073	795
ENST00000216877	PTPRA	chr20	3018775	+	ENST00000356260	SDAD1	chr4	76879094	-	5069	3654	400	2760	786
ENST00000216877	PTPRA	chr20	3018775	+	ENST00000395711	SDAD1	chr4	76879094	-	4699	3654	400	2760	786
ENST00000358719	PTPRA	chr20	3018775	+	ENST00000356260	SDAD1	chr4	76879094	-	4687	3272	393	2786	797
ENST00000358719	PTPRA	chr20	3018775	+	ENST00000395711	SDAD1	chr4	76879094	-	4317	3272	393	2786	797
ENST00000399903	PTPRA	chr20	3018775	+	ENST00000356260	SDAD1	chr4	76879094	-	4681	3266	393	2780	795
ENST00000399903	PTPRA	chr20	3018775	+	ENST00000395711	SDAD1	chr4	76879094	-	4311	3266	393	2780	795
ENST00000318266	PTPRA	chr20	3018775	+	ENST00000356260	SDAD1	chr4	76879094	-	4563	3148	215	2656	813
ENST00000318266	PTPRA	chr20	3018775	+	ENST00000395711	SDAD1	chr4	76879094	-	4193	3148	215	2656	813
ENST00000356147	PTPRA	chr20	3018775	+	ENST00000356260	SDAD1	chr4	76879094	-	4479	3064	137	2578	813
ENST00000356147	PTPRA	chr20	3018775	+	ENST00000395711	SDAD1	chr4	76879094	-	4109	3064	137	2578	813

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
ENST00000380393	ENST00000356260	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000487601	0.99951243
ENST00000380393	ENST00000395711	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000723458	0.9992766
ENST00000216877	ENST00000356260	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000274168	0.99972576
ENST00000216877	ENST00000395711	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.00039394	0.9996061
ENST00000358719	ENST00000356260	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000417045	0.99958295
ENST00000358719	ENST00000395711	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000580815	0.9994192
ENST00000399903	ENST00000356260	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000289255	0.99971074
ENST00000399903	ENST00000395711	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000400172	0.9995999
ENST00000318266	ENST00000356260	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000309651	0.9996904
ENST00000318266	ENST00000395711	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.0004546	0.9995454
ENST00000356147	ENST00000356260	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000316365	0.9996836
ENST00000356147	ENST00000395711	PTPRA	chr20	3018775	+	SDAD1	chr4	76879094	-	0.000472479	0.9995276

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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

>70322_70322_1_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000216877_SDAD1_chr4_76879094_ENST00000356260_length(amino acids)=786AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSLLVIVFIIIVLYMLRFKKYKQAGSHSNS
FRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEKNRYVNILPYDH
SRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQGCWTYGNIRVSV
EDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGRTGTFVVIDAML
DMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFKKLTSIKIQNDK
MRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCSIVMLTELEERG
QEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQKQQQQSGNHPIT

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

>70322_70322_2_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000216877_SDAD1_chr4_76879094_ENST00000395711_length(amino acids)=786AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSLLVIVFIIIVLYMLRFKKYKQAGSHSNS
FRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEKNRYVNILPYDH
SRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQGCWTYGNIRVSV
EDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGRTGTFVVIDAML
DMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFKKLTSIKIQNDK
MRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCSIVMLTELEERG
QEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQKQQQQSGNHPIT

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

>70322_70322_3_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000318266_SDAD1_chr4_76879094_ENST00000356260_length(amino acids)=813AA_BP=
MPVFQADFSHWQLFRVLFLLHPPLVISMDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAP
TFSPNITLGPTYLTTVNSSDSDNGTTRTASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSL
LVIVFIIIVLYMLRFKKYKQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACP
IQATCEAASKEENKEKNRYVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNL
KERKECKCAQYWPDQGCWTYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNP
QYAGAIVVHCSAGVGRTGTFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIY
NKIPGTSNNGLEEEFKKLTSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLH
TIEDFWRMIWEWKSCSIVMLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGI
PSDGKGMISIIAAVQKQQQQSGNHPITVHCSAGAGRTGTFCALSTVLERVKAEGILDVFQTVKSLRLQRPHMVQTLVSGNKGPWTRRIAF

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

>70322_70322_4_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000318266_SDAD1_chr4_76879094_ENST00000395711_length(amino acids)=813AA_BP=
MPVFQADFSHWQLFRVLFLLHPPLVISMDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAP
TFSPNITLGPTYLTTVNSSDSDNGTTRTASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSL
LVIVFIIIVLYMLRFKKYKQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACP
IQATCEAASKEENKEKNRYVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNL
KERKECKCAQYWPDQGCWTYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNP
QYAGAIVVHCSAGVGRTGTFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIY
NKIPGTSNNGLEEEFKKLTSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLH
TIEDFWRMIWEWKSCSIVMLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGI
PSDGKGMISIIAAVQKQQQQSGNHPITVHCSAGAGRTGTFCALSTVLERVKAEGILDVFQTVKSLRLQRPHMVQTLVSGNKGPWTRRIAF

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

>70322_70322_5_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000356147_SDAD1_chr4_76879094_ENST00000356260_length(amino acids)=813AA_BP=
MPVFQADFSHWQLFRVLFLLHPPLVISMDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAP
TFSPNITLGPTYLTTVNSSDSDNGTTRTASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSL
LVIVFIIIVLYMLRFKKYKQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACP
IQATCEAASKEENKEKNRYVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNL
KERKECKCAQYWPDQGCWTYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNP
QYAGAIVVHCSAGVGRTGTFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIY
NKIPGTSNNGLEEEFKKLTSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLH
TIEDFWRMIWEWKSCSIVMLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGI
PSDGKGMISIIAAVQKQQQQSGNHPITVHCSAGAGRTGTFCALSTVLERVKAEGILDVFQTVKSLRLQRPHMVQTLVSGNKGPWTRRIAF

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

>70322_70322_6_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000356147_SDAD1_chr4_76879094_ENST00000395711_length(amino acids)=813AA_BP=
MPVFQADFSHWQLFRVLFLLHPPLVISMDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAP
TFSPNITLGPTYLTTVNSSDSDNGTTRTASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSL
LVIVFIIIVLYMLRFKKYKQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACP
IQATCEAASKEENKEKNRYVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNL
KERKECKCAQYWPDQGCWTYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNP
QYAGAIVVHCSAGVGRTGTFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIY
NKIPGTSNNGLEEEFKKLTSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLH
TIEDFWRMIWEWKSCSIVMLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGI
PSDGKGMISIIAAVQKQQQQSGNHPITVHCSAGAGRTGTFCALSTVLERVKAEGILDVFQTVKSLRLQRPHMVQTLVSGNKGPWTRRIAF

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

>70322_70322_7_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000358719_SDAD1_chr4_76879094_ENST00000356260_length(amino acids)=797AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSLLVIVFIIIVLYMLRRFRKAELMSRNTE
KYKQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEK
NRYVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQG
CWTYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGR
TGTFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFK
KLTSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCS
IVMLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQK

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

>70322_70322_8_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000358719_SDAD1_chr4_76879094_ENST00000395711_length(amino acids)=797AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSLLVIVFIIIVLYMLRRFRKAELMSRNTE
KYKQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEK
NRYVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQG
CWTYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGR
TGTFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFK
KLTSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCS
IVMLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQK

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

>70322_70322_9_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000380393_SDAD1_chr4_76879094_ENST00000356260_length(amino acids)=795AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSGNSDSKDRRDETPIIAVMVALSSLLVIVFIIIVLYMLRFKKY
KQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEKNR
YVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQGCW
TYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGRTG
TFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFKKL
TSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCSIV
MLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQKQQ

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

>70322_70322_10_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000380393_SDAD1_chr4_76879094_ENST00000395711_length(amino acids)=795AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSGNSDSKDRRDETPIIAVMVALSSLLVIVFIIIVLYMLRFKKY
KQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEKNR
YVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQGCW
TYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGRTG
TFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFKKL
TSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCSIV
MLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQKQQ

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

>70322_70322_11_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000399903_SDAD1_chr4_76879094_ENST00000356260_length(amino acids)=795AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSGNSDSKDRRDETPIIAVMVALSSLLVIVFIIIVLYMLRFKKY
KQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEKNR
YVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQGCW
TYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGRTG
TFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFKKL
TSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCSIV
MLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQKQQ

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

>70322_70322_12_PTPRA-SDAD1_PTPRA_chr20_3018775_ENST00000399903_SDAD1_chr4_76879094_ENST00000395711_length(amino acids)=795AA_BP=
MDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAPTFSPNITLGPTYLTTVNSSDSDNGTTR
TASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSGNSDSKDRRDETPIIAVMVALSSLLVIVFIIIVLYMLRFKKY
KQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACPIQATCEAASKEENKEKNR
YVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNLKERKECKCAQYWPDQGCW
TYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNPQYAGAIVVHCSAGVGRTG
TFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIYNKIPGTSNNGLEEEFKKL
TSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLHTIEDFWRMIWEWKSCSIV
MLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGIPSDGKGMISIIAAVQKQQ

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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/chr20:3018775/chr4:76879094)
- 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
.	.
FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.	FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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

- 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

PTPRA

chr20:3018775

chr4:76879094

ENST00000216877

241_501

794.0

Domain

Tyrosine-protein phosphatase 1

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000216877

533_791

794.0

Domain

Tyrosine-protein phosphatase 2

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000318266

241_501

794.0

Domain

Tyrosine-protein phosphatase 1

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000318266

533_791

794.0

Domain

Tyrosine-protein phosphatase 2

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000356147

241_501

794.0

Domain

Tyrosine-protein phosphatase 1

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000356147

533_791

794.0

Domain

Tyrosine-protein phosphatase 2

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000380393

241_501

803.0

Domain

Tyrosine-protein phosphatase 1

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000380393

533_791

803.0

Domain

Tyrosine-protein phosphatase 2

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000399903

241_501

803.0

Domain

Tyrosine-protein phosphatase 1

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000399903

533_791

803.0

Domain

Tyrosine-protein phosphatase 2

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000216877

442_448

794.0

Region

Substrate binding

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000318266

442_448

794.0

Region

Substrate binding

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000356147

442_448

794.0

Region

Substrate binding

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000380393

442_448

803.0

Region

Substrate binding

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000399903

442_448

803.0

Region

Substrate binding

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000216877

175_802

794.0

Topological domain

Cytoplasmic

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000216877

20_151

794.0

Topological domain

Extracellular

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000318266

175_802

794.0

Topological domain

Cytoplasmic

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000318266

20_151

794.0

Topological domain

Extracellular

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000356147

175_802

794.0

Topological domain

Cytoplasmic

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000356147

20_151

794.0

Topological domain

Extracellular

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000380393

175_802

803.0

Topological domain

Cytoplasmic

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000380393

20_151

803.0

Topological domain

Extracellular

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000399903

175_802

803.0

Topological domain

Cytoplasmic

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000399903

20_151

803.0

Topological domain

Extracellular

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000216877

152_174

794.0

Transmembrane

Helical

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000318266

152_174

794.0

Transmembrane

Helical

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000356147

152_174

794.0

Transmembrane

Helical

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000380393

152_174

803.0

Transmembrane

Helical

Hgene

PTPRA

chr20:3018775

chr4:76879094

ENST00000399903

152_174

803.0

Transmembrane

Helical

Tgene

SDAD1

chr20:3018775

chr4:76879094

ENST00000356260

253_315

494.3333333333333

688.0

Coiled coil

Ontology_term=ECO:0000255

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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 >>>1588_PTPRA_3018775_SDAD1_76879094_ranked_0.pdb	PTPRA	3018775	3018775	ENST00000395711	SDAD1	chr4	76879094	-	MPVFQADFSHWQLFRVLFLLHPPLVISMDSWFILVLLGSGLICVSANNATTVAPSVGITRLINSSTAEPVKEEAKTSNPTSSLTSLSVAP TFSPNITLGPTYLTTVNSSDSDNGTTRTASTNSIGITISPNGTWLPDNQFTDARTEPWEGNSSTAATTPETFPPSDETPIIAVMVALSSL LVIVFIIIVLYMLRFKKYKQAGSHSNSFRLSNGRTEDVEPQSVPLLARSPSTNRKYPPLPVDKLEEEINRRMADDNKLFREEFNALPACP IQATCEAASKEENKEKNRYVNILPYDHSRVHLTPVEGVPDSDYINASFINGYQEKNKFIAAQGPKEETVNDFWRMIWEQNTATIVMVTNL KERKECKCAQYWPDQGCWTYGNIRVSVEDVTVLVDYTVRKFCIQQVGDMTNRKPQRLITQFHFTSWPDFGVPFTPIGMLKFLKKVKACNP QYAGAIVVHCSAGVGRTGTFVVIDAMLDMMHTERKVDVYGFVSRIRAQRCQMVQTDMQYVFIYQALLEHYLYGDTELEVTSLETHLQKIY NKIPGTSNNGLEEEFKKLTSIKIQNDKMRTGNLPANMKKNRVLQIIPYEFNRVIIPVKRGEENTDYVNASFIDGYRQKDSYIASQGPLLH TIEDFWRMIWEWKSCSIVMLTELEERGQEKCAQYWPSDGLVSYGDITVELKKEEECESYTVRDLLVTNTRENKSRQIRQFHFHGWPEVGI PSDGKGMISIIAAVQKQQQQSGNHPITVHCSAGAGRTGTFCALSTVLERVKAEGILDVFQTVKSLRLQRPHMVQTLVSGNKGPWTRRIAF	813

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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.

PTPRA_pLDDT.png

SDAD1_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

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
PTPRA
SDAD1

- 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

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Related Drugs to PTPRA-SDAD1

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 PTPRA-SDAD1

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