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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:EIF3M-UEVLD

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: EIF3M-UEVLD
	FusionPDB ID: 25918
	FusionGDB2.0 ID: 25918
		Hgene	Tgene
	Gene symbol	EIF3M	UEVLD
	Gene ID	10480	55293
	Gene name	eukaryotic translation initiation factor 3 subunit M	UEV and lactate/malate dehyrogenase domains
	Synonyms	B5\|GA17\|PCID1\|TANGO7\|hfl-B5	ATTP\|UEV3
	Cytomap	11p13	11p15.1
	Type of gene	protein-coding	protein-coding
	Description	eukaryotic translation initiation factor 3 subunit MB5 receptorPCI domain containing 1 (herpesvirus entry mediator)PCI domain-containing protein 1dendritic cell proteinfetal lung protein B5transport and golgi organization 7 homolog	ubiquitin-conjugating enzyme E2 variant 3EV and lactate/malate dehydrogenase domain-containing proteinUEV-3signaling molecule ATTP
	Modification date	20200313	20200313
	UniProtAcc	Q7L2H7	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000524896, ENST00000531120, ENST00000532054,	ENST00000300038, ENST00000320750, ENST00000379387, ENST00000535484, ENST00000540666, ENST00000541984, ENST00000396197, ENST00000543987,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	9 X 9 X 4=324	3 X 3 X 3=27
	# samples	10	3
	** MAII score	log2(10/324*10)=-1.6959938131099 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(3/27*10)=0.15200309344505 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0
Context (manual curation of fusion genes in FusionPDB)	PubMed: EIF3M [Title/Abstract] AND UEVLD [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	EIF3M(32617593)-UEVLD(18591924), # samples:3
Anticipated loss of major functional domain due to fusion event.	EIF3M-UEVLD 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. EIF3M-UEVLD 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. EIF3M-UEVLD 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. EIF3M-UEVLD 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

Fusion gene breakpoints across EIF3M (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 UEVLD (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	SARC	TCGA-DX-A1KU-01A	EIF3M	chr11	32617593	-	UEVLD	chr11	18591924	-
ChimerDB4	SARC	TCGA-DX-A1KU-01A	EIF3M	chr11	32617593	+	UEVLD	chr11	18591924	-
ChimerDB4	SARC	TCGA-DX-A1KU	EIF3M	chr11	32617593	+	UEVLD	chr11	18591924	-

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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)
ENST00000531120	EIF3M	chr11	32617593	+	ENST00000396197	UEVLD	chr11	18591924	-	4796	862	63	2084	673
ENST00000531120	EIF3M	chr11	32617593	+	ENST00000543987	UEVLD	chr11	18591924	-	3080	862	63	1808	581
ENST00000524896	EIF3M	chr11	32617593	+	ENST00000396197	UEVLD	chr11	18591924	-	4391	457	54	1679	541
ENST00000524896	EIF3M	chr11	32617593	+	ENST00000543987	UEVLD	chr11	18591924	-	2675	457	54	1403	449

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
ENST00000531120	ENST00000396197	EIF3M	chr11	32617593	+	UEVLD	chr11	18591924	-	9.71E-05	0.99990296
ENST00000531120	ENST00000543987	EIF3M	chr11	32617593	+	UEVLD	chr11	18591924	-	0.000124928	0.99987507
ENST00000524896	ENST00000396197	EIF3M	chr11	32617593	+	UEVLD	chr11	18591924	-	0.000169616	0.99983037
ENST00000524896	ENST00000543987	EIF3M	chr11	32617593	+	UEVLD	chr11	18591924	-	0.000185087	0.9998149

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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

>25918_25918_1_EIF3M-UEVLD_EIF3M_chr11_32617593_ENST00000524896_UEVLD_chr11_18591924_ENST00000396197_length(amino acids)=541AA_BP=134
MSVPAFIDISEEDQVRKWISDWNLTTEKKHTLLRLLYEALVDCKKSDAASKVMVELLGSYTEDNASQARVDAHRCIVRALKDPNAFLFDH
LLTLKPVKFLEGELIHDLLTIFVSAKLASYVKFYQNNKDFIDSLGNTYNIPIRFWILDSHPFAPPICFLKPTANMGILVGKHVDAQGRIY
LPYLQNWSHPKSVIVGLIKEMIAKFQEELPMYSLSSSDEARQVDLLAYIAKITEGVSDTNSKSWANHENKTVNKITVVGGGELGIACTLA
ISAKGIADRLVLLDLSEGTKGATMDLEIFNLPNVEISKDLSASAHSKVVIFTVNSLGSSQSYLDVVQSNVDMFRALVPALGHYSQHSVLL
VASQPVEIMTYVTWKLSTFPANRVIGIGCNLDSQRLQYIITNVLKAQTSGKEVWVIGEQGEDKVLTWSGQEEVVSHTSQVQLSNRAMELL
RVKGQRSWSVGLSVADMVDSIVNNKKKVHSVSALAKGYYDINSEVFLSLPCILGTNGVSEVIKTTLKEDTVTEKLQSSASSIHSLQQQLK

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

>25918_25918_2_EIF3M-UEVLD_EIF3M_chr11_32617593_ENST00000524896_UEVLD_chr11_18591924_ENST00000543987_length(amino acids)=449AA_BP=134
MSVPAFIDISEEDQVRKWISDWNLTTEKKHTLLRLLYEALVDCKKSDAASKVMVELLGSYTEDNASQARVDAHRCIVRALKDPNAFLFDH
LLTLKPVKFLEGELIHDLLTIFVSAKLASYVKFYQNNKDFIDSLGNTYNIPIRFWILDSHPFAPPICFLKPTANMGILVGKHVDAQGRIY
LPYLQNWSHPKSVIVGLIKEMIAKFQEELPMYSLSSSDEARQVDLLAYIAKITEGVSDTNSKSWANHENKTVNKITVVGGGELGIACTLA
ISAKGIADRLVLLDLSEGTKGATMDLEIFNLPNVEISKDLSASAHSKVVIFTVNSLGSSQSYLDVVQSNVDMFRALVPALGHYSQHSVLL

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

>25918_25918_3_EIF3M-UEVLD_EIF3M_chr11_32617593_ENST00000531120_UEVLD_chr11_18591924_ENST00000396197_length(amino acids)=673AA_BP=266
MSVPAFIDISEEDQAAELRAYLKSKGAEISEENSEGGLHVDLAQIIEACDVCLKEDDKDVESVMNSVVSLLLILEPDKQEALIESLCEKL
VKFREGERPSLRLQLLSNLFHGMDKNTPVRYTVYCSLIKVAASCGAIQYIPTELDQVRKWISDWNLTTEKKHTLLRLLYEALVDCKKSDA
ASKVMVELLGSYTEDNASQARVDAHRCIVRALKDPNAFLFDHLLTLKPVKFLEGELIHDLLTIFVSAKLASYVKFYQNNKDFIDSLGNTY
NIPIRFWILDSHPFAPPICFLKPTANMGILVGKHVDAQGRIYLPYLQNWSHPKSVIVGLIKEMIAKFQEELPMYSLSSSDEARQVDLLAY
IAKITEGVSDTNSKSWANHENKTVNKITVVGGGELGIACTLAISAKGIADRLVLLDLSEGTKGATMDLEIFNLPNVEISKDLSASAHSKV
VIFTVNSLGSSQSYLDVVQSNVDMFRALVPALGHYSQHSVLLVASQPVEIMTYVTWKLSTFPANRVIGIGCNLDSQRLQYIITNVLKAQT
SGKEVWVIGEQGEDKVLTWSGQEEVVSHTSQVQLSNRAMELLRVKGQRSWSVGLSVADMVDSIVNNKKKVHSVSALAKGYYDINSEVFLS

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

>25918_25918_4_EIF3M-UEVLD_EIF3M_chr11_32617593_ENST00000531120_UEVLD_chr11_18591924_ENST00000543987_length(amino acids)=581AA_BP=266
MSVPAFIDISEEDQAAELRAYLKSKGAEISEENSEGGLHVDLAQIIEACDVCLKEDDKDVESVMNSVVSLLLILEPDKQEALIESLCEKL
VKFREGERPSLRLQLLSNLFHGMDKNTPVRYTVYCSLIKVAASCGAIQYIPTELDQVRKWISDWNLTTEKKHTLLRLLYEALVDCKKSDA
ASKVMVELLGSYTEDNASQARVDAHRCIVRALKDPNAFLFDHLLTLKPVKFLEGELIHDLLTIFVSAKLASYVKFYQNNKDFIDSLGNTY
NIPIRFWILDSHPFAPPICFLKPTANMGILVGKHVDAQGRIYLPYLQNWSHPKSVIVGLIKEMIAKFQEELPMYSLSSSDEARQVDLLAY
IAKITEGVSDTNSKSWANHENKTVNKITVVGGGELGIACTLAISAKGIADRLVLLDLSEGTKGATMDLEIFNLPNVEISKDLSASAHSKV
VIFTVNSLGSSQSYLDVVQSNVDMFRALVPALGHYSQHSVLLVASQPVEIMTYVTWKLSTFPANRVIGIGCNLDSQRLQYIITNVLKAQT

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

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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/chr11:32617593/chr11:18591924)
- 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
EIF3M Q7L2H7	.
FUNCTION: Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is required for several steps in the initiation of protein synthesis (PubMed:17403899, PubMed:25849773, PubMed:27462815). The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF-2:GTP:methionyl-tRNAi and eIF-5 to form the 43S pre-initiation complex (43S PIC). The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of post-termination ribosomal complexes and subsequently prevents premature joining of the 40S and 60S ribosomal subunits prior to initiation (PubMed:17403899). The eIF-3 complex specifically targets and initiates translation of a subset of mRNAs involved in cell proliferation, including cell cycling, differentiation and apoptosis, and uses different modes of RNA stem-loop binding to exert either translational activation or repression (PubMed:25849773). {ECO:0000255\|HAMAP-Rule:MF_03012, ECO:0000269\|PubMed:17403899, ECO:0000269\|PubMed:25849773, ECO:0000269\|PubMed:27462815}.; FUNCTION: (Microbial infection) May favor virus entry in case of infection with herpes simplex virus 1 (HSV1) or herpes simplex virus 2 (HSV2). {ECO:0000269\|PubMed:15919898}.	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

UEVLD

chr11:32617593

chr11:18591924

ENST00000541984

2_145

200.0

Domain

UEV

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000300038

191_219

64.33333333333333

216.0

Nucleotide binding

NAD

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000320750

191_219

42.333333333333336

358.0

Nucleotide binding

NAD

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000379387

191_219

42.333333333333336

450.0

Nucleotide binding

NAD

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000396197

191_219

64.33333333333333

472.0

Nucleotide binding

NAD

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000535484

191_219

26.333333333333332

342.0

Nucleotide binding

NAD

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000541984

191_219

200.0

Nucleotide binding

NAD

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000543987

191_219

64.33333333333333

380.0

Nucleotide binding

NAD

- 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

EIF3M

chr11:32617593

chr11:18591924

ENST00000531120

180_339

266.3333333333333

375.0

Domain

PCI

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000300038

2_145

64.33333333333333

216.0

Domain

UEV

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000320750

2_145

42.333333333333336

358.0

Domain

UEV

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000379387

2_145

42.333333333333336

450.0

Domain

UEV

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000396197

2_145

64.33333333333333

472.0

Domain

UEV

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000535484

2_145

26.333333333333332

342.0

Domain

UEV

Tgene

UEVLD

chr11:32617593

chr11:18591924

ENST00000543987

2_145

64.33333333333333

380.0

Domain

UEV

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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)

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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.

EIF3M_pLDDT.png

UEVLD_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
EIF3M
UEVLD

- 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
Hgene	EIF3M	chr11:32617593	chr11:18591924	ENST00000531120	+	8	11	344_374	266.3333333333333	375.0	HSV-1 and HSV-2

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Related Drugs to EIF3M-UEVLD

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 EIF3M-UEVLD

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