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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:LDHA-WIPI2

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: LDHA-WIPI2
	FusionPDB ID: 44336
	FusionGDB2.0 ID: 44336
		Hgene	Tgene
	Gene symbol	LDHA	WIPI2
	Gene ID	3939	26100
	Gene name	lactate dehydrogenase A	WD repeat domain, phosphoinositide interacting 2
	Synonyms	GSD11\|HEL-S-133P\|LDHM\|PIG19	ATG18B\|Atg21\|CGI-50\|IDDSSA\|WIPI-2
	Cytomap	11p15.1	7p22.1
	Type of gene	protein-coding	protein-coding
	Description	L-lactate dehydrogenase A chainLDH muscle subunitLDH-ALDH-Mcell proliferation-inducing gene 19 proteinepididymis secretory sperm binding protein Li 133Plactate dehydrogenase Mproliferation-inducing gene 19renal carcinoma antigen NY-REN-59	WD repeat domain phosphoinositide-interacting protein 2WD40 repeat protein interacting with phosphoinositides 2WIPI49-like protein 2
	Modification date	20200313	20200313
	UniProtAcc	Q6ZMR3	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000379412, ENST00000422447, ENST00000430553, ENST00000540430, ENST00000542179, ENST00000227157, ENST00000396222,	ENST00000382384, ENST00000484262, ENST00000485854, ENST00000288828, ENST00000401525, ENST00000404704,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	8 X 11 X 2=176	7 X 7 X 3=147
	# samples	12	7
	** MAII score	log2(12/176*10)=-0.552541023028779 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(7/147*10)=-1.0703893278914 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: LDHA [Title/Abstract] AND WIPI2 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	LDHA(18427106)-WIPI2(5262235), # samples:4
Anticipated loss of major functional domain due to fusion event.	LDHA-WIPI2 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. LDHA-WIPI2 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
Tgene	WIPI2	GO:0009267	cellular response to starvation	28561066

Fusion gene breakpoints across LDHA (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 WIPI2 (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
ChiTaRS5.0	N/A	BG775162	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+
ChiTaRS5.0	N/A	BM044090	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+
ChiTaRS5.0	N/A	BM049309	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+
ChiTaRS5.0	N/A	BQ928549	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+

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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)
ENST00000422447	LDHA	chr11	18427106	+	ENST00000288828	WIPI2	chr7	5262235	+	4571	996	138	1691	517
ENST00000422447	LDHA	chr11	18427106	+	ENST00000401525	WIPI2	chr7	5262235	+	2269	996	138	1691	517
ENST00000422447	LDHA	chr11	18427106	+	ENST00000404704	WIPI2	chr7	5262235	+	1816	996	138	1658	506
ENST00000430553	LDHA	chr11	18427106	+	ENST00000288828	WIPI2	chr7	5262235	+	4223	648	99	1343	414
ENST00000430553	LDHA	chr11	18427106	+	ENST00000401525	WIPI2	chr7	5262235	+	1921	648	99	1343	414
ENST00000430553	LDHA	chr11	18427106	+	ENST00000404704	WIPI2	chr7	5262235	+	1468	648	99	1310	403
ENST00000540430	LDHA	chr11	18427106	+	ENST00000288828	WIPI2	chr7	5262235	+	4667	1092	282	1787	501
ENST00000540430	LDHA	chr11	18427106	+	ENST00000401525	WIPI2	chr7	5262235	+	2365	1092	282	1787	501
ENST00000540430	LDHA	chr11	18427106	+	ENST00000404704	WIPI2	chr7	5262235	+	1912	1092	282	1754	490
ENST00000379412	LDHA	chr11	18427106	+	ENST00000288828	WIPI2	chr7	5262235	+	4655	1080	270	1775	501
ENST00000379412	LDHA	chr11	18427106	+	ENST00000401525	WIPI2	chr7	5262235	+	2353	1080	270	1775	501
ENST00000379412	LDHA	chr11	18427106	+	ENST00000404704	WIPI2	chr7	5262235	+	1900	1080	270	1742	490
ENST00000542179	LDHA	chr11	18427106	+	ENST00000288828	WIPI2	chr7	5262235	+	4587	1012	289	1707	472
ENST00000542179	LDHA	chr11	18427106	+	ENST00000401525	WIPI2	chr7	5262235	+	2285	1012	289	1707	472
ENST00000542179	LDHA	chr11	18427106	+	ENST00000404704	WIPI2	chr7	5262235	+	1832	1012	289	1674	461

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
ENST00000422447	ENST00000288828	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.002107667	0.9978923
ENST00000422447	ENST00000401525	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.002231084	0.9977689
ENST00000422447	ENST00000404704	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.002596722	0.9974032
ENST00000430553	ENST00000288828	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.002598734	0.99740124
ENST00000430553	ENST00000401525	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.002409172	0.9975909
ENST00000430553	ENST00000404704	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.002709419	0.99729055
ENST00000540430	ENST00000288828	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.001243942	0.99875605
ENST00000540430	ENST00000401525	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.000969505	0.9990305
ENST00000540430	ENST00000404704	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.00120462	0.9987954
ENST00000379412	ENST00000288828	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.00126629	0.9987337
ENST00000379412	ENST00000401525	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.001011973	0.998988
ENST00000379412	ENST00000404704	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.001260095	0.9987399
ENST00000542179	ENST00000288828	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.001537033	0.99846303
ENST00000542179	ENST00000401525	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.001044564	0.99895537
ENST00000542179	ENST00000404704	LDHA	chr11	18427106	+	WIPI2	chr7	5262235	+	0.001103604	0.99889636

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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

>44336_44336_1_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000379412_WIPI2_chr7_5262235_ENST00000288828_length(amino acids)=501AA_BP=270
MGEPSGGYTYTQTSIFLFHAKIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGE
MMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKIS
GFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIK
GTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEM
FNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAA

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

>44336_44336_2_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000379412_WIPI2_chr7_5262235_ENST00000401525_length(amino acids)=501AA_BP=270
MGEPSGGYTYTQTSIFLFHAKIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGE
MMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKIS
GFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIK
GTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEM
FNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAA

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

>44336_44336_3_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000379412_WIPI2_chr7_5262235_ENST00000404704_length(amino acids)=490AA_BP=270
MGEPSGGYTYTQTSIFLFHAKIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGE
MMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKIS
GFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIK
GTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEM
FNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAA

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

>44336_44336_4_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000422447_WIPI2_chr7_5262235_ENST00000288828_length(amino acids)=517AA_BP=286
MFHLRPLPRPAQSAAAAAADSGSHCHAPPTTARRAFPIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLA
DELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLI
VSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKE
QWKEVHKQVVESTMIKGTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGK
VLMASTSYLPSQVTEMFNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILD

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

>44336_44336_5_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000422447_WIPI2_chr7_5262235_ENST00000401525_length(amino acids)=517AA_BP=286
MFHLRPLPRPAQSAAAAAADSGSHCHAPPTTARRAFPIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLA
DELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLI
VSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKE
QWKEVHKQVVESTMIKGTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGK
VLMASTSYLPSQVTEMFNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILD

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

>44336_44336_6_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000422447_WIPI2_chr7_5262235_ENST00000404704_length(amino acids)=506AA_BP=286
MFHLRPLPRPAQSAAAAAADSGSHCHAPPTTARRAFPIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLA
DELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLI
VSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKE
QWKEVHKQVVESTMIKGTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGK
VLMASTSYLPSQVTEMFNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILD

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

>44336_44336_7_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000430553_WIPI2_chr7_5262235_ENST00000288828_length(amino acids)=414AA_BP=183
MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKVDILTYVAW
KISGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVEST
MIKGTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQV
TEMFNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTY

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

>44336_44336_8_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000430553_WIPI2_chr7_5262235_ENST00000401525_length(amino acids)=414AA_BP=183
MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKVDILTYVAW
KISGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVEST
MIKGTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQV
TEMFNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTY

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

>44336_44336_9_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000430553_WIPI2_chr7_5262235_ENST00000404704_length(amino acids)=403AA_BP=183
MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKVDILTYVAW
KISGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVEST
MIKGTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQV
TEMFNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTY

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

>44336_44336_10_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000540430_WIPI2_chr7_5262235_ENST00000288828_length(amino acids)=501AA_BP=270
MGEPSGGYTYTQTSIFLFHAKIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGE
MMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKIS
GFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIK
GTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEM
FNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAA

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

>44336_44336_11_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000540430_WIPI2_chr7_5262235_ENST00000401525_length(amino acids)=501AA_BP=270
MGEPSGGYTYTQTSIFLFHAKIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGE
MMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKIS
GFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIK
GTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEM
FNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAA

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

>44336_44336_12_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000540430_WIPI2_chr7_5262235_ENST00000404704_length(amino acids)=490AA_BP=270
MGEPSGGYTYTQTSIFLFHAKIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGE
MMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKIS
GFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIK
GTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEM
FNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAA

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

>44336_44336_13_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000542179_WIPI2_chr7_5262235_ENST00000288828_length(amino acids)=472AA_BP=241
MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKDYNVTANSK
LVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV
HPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIKGTVIRVFSIPEGQKLFEFRRGVKRCVSIC
SLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEMFNQGRAFATVRLPFCGHKNICSLATIQKI
PRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAAAGKGTYVPSSPTRLAYTDDLGAVGGACLE

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

>44336_44336_14_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000542179_WIPI2_chr7_5262235_ENST00000401525_length(amino acids)=472AA_BP=241
MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKDYNVTANSK
LVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV
HPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIKGTVIRVFSIPEGQKLFEFRRGVKRCVSIC
SLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEMFNQGRAFATVRLPFCGHKNICSLATIQKI
PRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAAAGKGTYVPSSPTRLAYTDDLGAVGGACLE

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

>44336_44336_15_LDHA-WIPI2_LDHA_chr11_18427106_ENST00000542179_WIPI2_chr7_5262235_ENST00000404704_length(amino acids)=461AA_BP=241
MATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKDYNVTANSK
LVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGV
HPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKEQWKEVHKQVVESTMIKGTVIRVFSIPEGQKLFEFRRGVKRCVSIC
SLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGKVLMASTSYLPSQVTEMFNQGRAFATVRLPFCGHKNICSLATIQKI
PRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILDSASHDCPLVTQTYGAAAGKAYTDDLGAVGGACLEDEASALRLDED

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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/chr11:18427106/chr7:5262235)
- 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
LDHA Q6ZMR3	.
FUNCTION: Displays an lactate dehydrogenase activity. Significantly increases the transcriptional activity of JUN, when overexpressed. {ECO:0000269\|PubMed:18351441}.	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

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

241_244

223.0

455.0

Motif

FRRG motif

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

241_244

205.0

426.0

Motif

FRRG motif

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

241_244

205.0

437.0

Motif

FRRG motif

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

241_244

223.0

444.0

Motif

FRRG motif

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

241_244

164.0

385.0

Motif

FRRG motif

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

238_277

223.0

455.0

Repeat

WD 6

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

320_359

223.0

455.0

Repeat

WD 7

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

238_277

205.0

426.0

Repeat

WD 6

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

320_359

205.0

426.0

Repeat

WD 7

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

238_277

205.0

437.0

Repeat

WD 6

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

320_359

205.0

437.0

Repeat

WD 7

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

238_277

223.0

444.0

Repeat

WD 6

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

320_359

223.0

444.0

Repeat

WD 7

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

193_232

164.0

385.0

Repeat

WD 5

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

238_277

164.0

385.0

Repeat

WD 6

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

320_359

164.0

385.0

Repeat

WD 7

- 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

LDHA

chr11:18427106

chr7:5262235

ENST00000227157

29_57

242.0

Nucleotide binding

NAD

Hgene

LDHA

chr11:18427106

chr7:5262235

ENST00000379412

29_57

333.0

Nucleotide binding

NAD

Hgene

LDHA

chr11:18427106

chr7:5262235

ENST00000396222

29_57

275.0

Nucleotide binding

NAD

Hgene

LDHA

chr11:18427106

chr7:5262235

ENST00000422447

29_57

333.0

Nucleotide binding

NAD

Hgene

LDHA

chr11:18427106

chr7:5262235

ENST00000430553

29_57

275.0

Nucleotide binding

NAD

Hgene

LDHA

chr11:18427106

chr7:5262235

ENST00000540430

29_57

362.0

Nucleotide binding

NAD

Hgene

LDHA

chr11:18427106

chr7:5262235

ENST00000542179

29_57

333.0

Nucleotide binding

NAD

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

110_142

223.0

455.0

Repeat

WD 3

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

149_189

223.0

455.0

Repeat

WD 4

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

15_60

223.0

455.0

Repeat

WD 1

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

193_232

223.0

455.0

Repeat

WD 5

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000288828

67_104

223.0

455.0

Repeat

WD 2

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

110_142

205.0

426.0

Repeat

WD 3

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

149_189

205.0

426.0

Repeat

WD 4

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

15_60

205.0

426.0

Repeat

WD 1

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

193_232

205.0

426.0

Repeat

WD 5

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000382384

67_104

205.0

426.0

Repeat

WD 2

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

110_142

205.0

437.0

Repeat

WD 3

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

149_189

205.0

437.0

Repeat

WD 4

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

15_60

205.0

437.0

Repeat

WD 1

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

193_232

205.0

437.0

Repeat

WD 5

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000401525

67_104

205.0

437.0

Repeat

WD 2

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

110_142

223.0

444.0

Repeat

WD 3

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

149_189

223.0

444.0

Repeat

WD 4

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

15_60

223.0

444.0

Repeat

WD 1

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

193_232

223.0

444.0

Repeat

WD 5

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000404704

67_104

223.0

444.0

Repeat

WD 2

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

110_142

164.0

385.0

Repeat

WD 3

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

149_189

164.0

385.0

Repeat

WD 4

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

15_60

164.0

385.0

Repeat

WD 1

Tgene

WIPI2

chr11:18427106

chr7:5262235

ENST00000484262

67_104

164.0

385.0

Repeat

WD 2

Top

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 >>>1098_LDHA_18427106_WIPI2_5262235_1098_LDHA_18427106_WIPI2_5262235_ranked_0.pdb	LDHA	18427106	18427106	ENST00000404704	WIPI2	chr7	5262235	+	MFHLRPLPRPAQSAAAAAADSGSHCHAPPTTARRAFPIPFGSKSNMATLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLA DELALVDVIEDKLKGEMMDLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLI VSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAGVSLKTLHPDLGTDKDKE QWKEVHKQVVESTMIKGTVIRVFSIPEGQKLFEFRRGVKRCVSICSLAFSMDGMFLSASSNTETVHIFKLETVKEKPPEEPTTWTGYFGK VLMASTSYLPSQVTEMFNQGRAFATVRLPFCGHKNICSLATIQKIPRLLVGAADGYLYMYNLDPQEGGECALMKQHRLDGSLETTNEILD	517

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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.

LDHA_pLDDT.png

WIPI2_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
LDHA
WIPI2

- 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 LDHA-WIPI2

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to LDHA-WIPI2

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