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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:SEC16B-EGF

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: SEC16B-EGF
	FusionPDB ID: 80020
	FusionGDB2.0 ID: 80020
		Hgene	Tgene
	Gene symbol	SEC16B	EGF
	Gene ID	89866	1950
	Gene name	SEC16 homolog B, endoplasmic reticulum export factor	epidermal growth factor
	Synonyms	LZTR2\|PGPR-p117\|RGPR\|RGPR-p117\|SEC16S	HOMG4\|URG
	Cytomap	1q25.2	4q25
	Type of gene	protein-coding	protein-coding
	Description	protein transport protein Sec16Bleucine zipper transcription regulator 2protein SEC16 homolog Bregucalcin gene promoter region-related protein p117regucalcin gene promotor region related protein	pro-epidermal growth factorbeta-urogastrone
	Modification date	20200320	20200329
	UniProtAcc	.	P00533
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000308284, ENST00000464631, ENST00000495165,	ENST00000502723, ENST00000503392, ENST00000265171, ENST00000509793,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	2 X 2 X 2=8	2 X 4 X 2=16
	# samples	2	2
	** MAII score	log2(2/8*10)=1.32192809488736	log2(2/16*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0
Context (manual curation of fusion genes in FusionPDB)	PubMed: SEC16B [Title/Abstract] AND EGF [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	SEC16B(177927269)-EGF(110914401), # samples:2
Anticipated loss of major functional domain due to fusion event.	SEC16B-EGF 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. SEC16B-EGF 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. SEC16B-EGF 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. SEC16B-EGF 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	SEC16B	GO:0007029	endoplasmic reticulum organization	21768384
Hgene	SEC16B	GO:0007031	peroxisome organization	21768384
Tgene	EGF	GO:0001525	angiogenesis	15611079
Tgene	EGF	GO:0002092	positive regulation of receptor internalization	22732145
Tgene	EGF	GO:0008284	positive regulation of cell proliferation	7736574\|15611079\|20388803
Tgene	EGF	GO:0010628	positive regulation of gene expression	25678558
Tgene	EGF	GO:0010800	positive regulation of peptidyl-threonine phosphorylation	16314496
Tgene	EGF	GO:0030335	positive regulation of cell migration	25678558
Tgene	EGF	GO:0042327	positive regulation of phosphorylation	15611079
Tgene	EGF	GO:0043406	positive regulation of MAP kinase activity	15611079
Tgene	EGF	GO:0045741	positive regulation of epidermal growth factor-activated receptor activity	15611079\|20353436
Tgene	EGF	GO:0045840	positive regulation of mitotic nuclear division	15611079
Tgene	EGF	GO:0045893	positive regulation of transcription, DNA-templated	16314496
Tgene	EGF	GO:0051048	negative regulation of secretion	10559227
Tgene	EGF	GO:0070371	ERK1 and ERK2 cascade	16314496
Tgene	EGF	GO:0090263	positive regulation of canonical Wnt signaling pathway	20302655
Tgene	EGF	GO:0090279	regulation of calcium ion import	19996314
Tgene	EGF	GO:1900127	positive regulation of hyaluronan biosynthetic process	17324121
Tgene	EGF	GO:1902966	positive regulation of protein localization to early endosome	22298428
Tgene	EGF	GO:2000008	regulation of protein localization to cell surface	19996314

Fusion gene breakpoints across SEC16B (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 EGF (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	PRAD	TCGA-VP-A87K-01A	SEC16B	chr1	177927269	-	EGF	chr4	110914401	+
ChimerDB4	PRAD	TCGA-VP-A87K	SEC16B	chr1	177927269	-	EGF	chr4	110914401	+

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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)
ENST00000308284	SEC16B	chr1	177927269	-	ENST00000509793	EGF	chr4	110914401	+	2884	1455	45	1568	507
ENST00000308284	SEC16B	chr1	177927269	-	ENST00000265171	EGF	chr4	110914401	+	3156	1455	45	1568	507
ENST00000464631	SEC16B	chr1	177927269	-	ENST00000509793	EGF	chr4	110914401	+	2879	1450	37	1563	508
ENST00000464631	SEC16B	chr1	177927269	-	ENST00000265171	EGF	chr4	110914401	+	3151	1450	37	1563	508

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
ENST00000308284	ENST00000509793	SEC16B	chr1	177927269	-	EGF	chr4	110914401	+	0.005472393	0.99452764
ENST00000308284	ENST00000265171	SEC16B	chr1	177927269	-	EGF	chr4	110914401	+	0.00309307	0.99690694
ENST00000464631	ENST00000509793	SEC16B	chr1	177927269	-	EGF	chr4	110914401	+	0.005582206	0.9944178
ENST00000464631	ENST00000265171	SEC16B	chr1	177927269	-	EGF	chr4	110914401	+	0.003107202	0.9968928

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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

>80020_80020_1_SEC16B-EGF_SEC16B_chr1_177927269_ENST00000308284_EGF_chr4_110914401_ENST00000265171_length(amino acids)=507AA_BP=470
MHNLLKTQDKFRESRMELWAPQRLPQTRGKATAPSKDPDRGFRRDGHHRPVPHSWHNGERFHQWQDNRGSPQPQQEPRADHQQQPHYASR
PGDWHQPVSGVDYYEGGYRNQLYSRPGYENSYQSYQSPTMREEYAYGSYYYHGHPQWLQEERVPRQRSPYIWHEDYREQKYLDEHHYENQ
HSPFGTNSETHFQSNSRNPCKDSPASNSGQEWPGELFPGSLLAEAQKNKPSLASESNLLQQRESGLSSSSYELSQYIRDAPERDDPPASA
AWSPVQADVSSAGPKAPMKFYIPHVPVSFGPGGQLVHVGPSSPTDGQAALVELHSMEVILNDSEEQEEMRSFSGPLIREDVHKVDIMTFC
QQKAAQSCKSETLGSRDSALLWQLLVLLCRQNGSMVGSDIAELLMQDCKKLEKYKRQPPVANLINLTDEDWPVLSSGTPNLLTGEIPPSV

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

>80020_80020_2_SEC16B-EGF_SEC16B_chr1_177927269_ENST00000308284_EGF_chr4_110914401_ENST00000509793_length(amino acids)=507AA_BP=470
MHNLLKTQDKFRESRMELWAPQRLPQTRGKATAPSKDPDRGFRRDGHHRPVPHSWHNGERFHQWQDNRGSPQPQQEPRADHQQQPHYASR
PGDWHQPVSGVDYYEGGYRNQLYSRPGYENSYQSYQSPTMREEYAYGSYYYHGHPQWLQEERVPRQRSPYIWHEDYREQKYLDEHHYENQ
HSPFGTNSETHFQSNSRNPCKDSPASNSGQEWPGELFPGSLLAEAQKNKPSLASESNLLQQRESGLSSSSYELSQYIRDAPERDDPPASA
AWSPVQADVSSAGPKAPMKFYIPHVPVSFGPGGQLVHVGPSSPTDGQAALVELHSMEVILNDSEEQEEMRSFSGPLIREDVHKVDIMTFC
QQKAAQSCKSETLGSRDSALLWQLLVLLCRQNGSMVGSDIAELLMQDCKKLEKYKRQPPVANLINLTDEDWPVLSSGTPNLLTGEIPPSV

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

>80020_80020_3_SEC16B-EGF_SEC16B_chr1_177927269_ENST00000464631_EGF_chr4_110914401_ENST00000265171_length(amino acids)=508AA_BP=471
MHNLLKTQDKFRESRMELWAPQRLPQTRGKATAPSKDPDRGFRRDGHHRPVPHSWHNGERFHQWQDNRGSPQPQQEPRADHQQQPHYASR
PGDWHQPVSGVDYYEGGYRNQLYSRPGYENSYQSYQSPTMREEYAYGSYYYHGHPQWLQEERVPRQRSPYIWHEDYREQKYLDEHHYENQ
HSPFGTNSETHFQSNSRNPCKDSPASNSGQEWPGELFPGSLLAEAQKNKPSLASESNLLQQRESGLSSSSYELSQYIRDAPERDDPPASA
AWSPVQAEDVSSAGPKAPMKFYIPHVPVSFGPGGQLVHVGPSSPTDGQAALVELHSMEVILNDSEEQEEMRSFSGPLIREDVHKVDIMTF
CQQKAAQSCKSETLGSRDSALLWQLLVLLCRQNGSMVGSDIAELLMQDCKKLEKYKRQPPVANLINLTDEDWPVLSSGTPNLLTGEIPPS

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

>80020_80020_4_SEC16B-EGF_SEC16B_chr1_177927269_ENST00000464631_EGF_chr4_110914401_ENST00000509793_length(amino acids)=508AA_BP=471
MHNLLKTQDKFRESRMELWAPQRLPQTRGKATAPSKDPDRGFRRDGHHRPVPHSWHNGERFHQWQDNRGSPQPQQEPRADHQQQPHYASR
PGDWHQPVSGVDYYEGGYRNQLYSRPGYENSYQSYQSPTMREEYAYGSYYYHGHPQWLQEERVPRQRSPYIWHEDYREQKYLDEHHYENQ
HSPFGTNSETHFQSNSRNPCKDSPASNSGQEWPGELFPGSLLAEAQKNKPSLASESNLLQQRESGLSSSSYELSQYIRDAPERDDPPASA
AWSPVQAEDVSSAGPKAPMKFYIPHVPVSFGPGGQLVHVGPSSPTDGQAALVELHSMEVILNDSEEQEEMRSFSGPLIREDVHKVDIMTF
CQQKAAQSCKSETLGSRDSALLWQLLVLLCRQNGSMVGSDIAELLMQDCKKLEKYKRQPPVANLINLTDEDWPVLSSGTPNLLTGEIPPS

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

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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/chr1:177927269/chr4:110914401)
- 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
.	EGF P00533
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: Receptor tyrosine kinase binding ligands of the EGF family and activating several signaling cascades to convert extracellular cues into appropriate cellular responses (PubMed:2790960, PubMed:10805725, PubMed:27153536). Known ligands include EGF, TGFA/TGF-alpha, AREG, epigen/EPGN, BTC/betacellulin, epiregulin/EREG and HBEGF/heparin-binding EGF (PubMed:2790960, PubMed:7679104, PubMed:8144591, PubMed:9419975, PubMed:15611079, PubMed:12297049, PubMed:27153536, PubMed:20837704, PubMed:17909029). Ligand binding triggers receptor homo- and/or heterodimerization and autophosphorylation on key cytoplasmic residues. The phosphorylated receptor recruits adapter proteins like GRB2 which in turn activates complex downstream signaling cascades. Activates at least 4 major downstream signaling cascades including the RAS-RAF-MEK-ERK, PI3 kinase-AKT, PLCgamma-PKC and STATs modules (PubMed:27153536). May also activate the NF-kappa-B signaling cascade (PubMed:11116146). Also directly phosphorylates other proteins like RGS16, activating its GTPase activity and probably coupling the EGF receptor signaling to the G protein-coupled receptor signaling (PubMed:11602604). Also phosphorylates MUC1 and increases its interaction with SRC and CTNNB1/beta-catenin (PubMed:11483589). Positively regulates cell migration via interaction with CCDC88A/GIV which retains EGFR at the cell membrane following ligand stimulation, promoting EGFR signaling which triggers cell migration (PubMed:20462955). Plays a role in enhancing learning and memory performance (By similarity). {ECO:0000250\|UniProtKB:Q01279, ECO:0000269\|PubMed:10805725, ECO:0000269\|PubMed:11116146, ECO:0000269\|PubMed:11483589, ECO:0000269\|PubMed:11602604, ECO:0000269\|PubMed:12297049, ECO:0000269\|PubMed:12297050, ECO:0000269\|PubMed:12620237, ECO:0000269\|PubMed:12873986, ECO:0000269\|PubMed:15374980, ECO:0000269\|PubMed:15590694, ECO:0000269\|PubMed:15611079, ECO:0000269\|PubMed:17115032, ECO:0000269\|PubMed:17909029, ECO:0000269\|PubMed:19560417, ECO:0000269\|PubMed:20462955, ECO:0000269\|PubMed:20837704, ECO:0000269\|PubMed:21258366, ECO:0000269\|PubMed:27153536, ECO:0000269\|PubMed:2790960, ECO:0000269\|PubMed:7679104, ECO:0000269\|PubMed:8144591, ECO:0000269\|PubMed:9419975}.; FUNCTION: Isoform 2 may act as an antagonist of EGF action.; FUNCTION: (Microbial infection) Acts as a receptor for hepatitis C virus (HCV) in hepatocytes and facilitates its cell entry. Mediates HCV entry by promoting the formation of the CD81-CLDN1 receptor complexes that are essential for HCV entry and by enhancing membrane fusion of cells expressing HCV envelope glycoproteins. {ECO:0000269\|PubMed:21516087}.

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

SEC16B

chr1:177927269

chr4:110914401

ENST00000308284

232_235

455.0

1061.0

Compositional bias

Note=Poly-Ser

Hgene

SEC16B

chr1:177927269

chr4:110914401

ENST00000308284

88_126

455.0

1061.0

Compositional bias

Note=Tyr-rich

Hgene

SEC16B

chr1:177927269

chr4:110914401

ENST00000308284

34_224

455.0

1061.0

Region

Note=Required for endoplasmic reticulum localization

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

972_1013

911.3333333333334

1208.0

Domain

EGF-like 9

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

356_396

1167.0

Domain

EGF-like 2%3B calcium-binding

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

397_437

1167.0

Domain

EGF-like 3

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

435_477

1167.0

Domain

EGF-like 4

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

741_781

1167.0

Domain

EGF-like 5

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

831_869

1167.0

Domain

EGF-like 6

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

870_911

1167.0

Domain

EGF-like 7%3B calcium-binding

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

972_1013

1167.0

Domain

EGF-like 9

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

870_911

869.3333333333334

1166.0

Domain

EGF-like 7%3B calcium-binding

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

972_1013

869.3333333333334

1166.0

Domain

EGF-like 9

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

801_807

1167.0

Region

Note=O-glycosylated at one site

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

128_169

1167.0

Repeat

Note=LDL-receptor class B 2

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

170_211

1167.0

Repeat

Note=LDL-receptor class B 3

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

212_258

1167.0

Repeat

Note=LDL-receptor class B 4

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

483_523

1167.0

Repeat

Note=LDL-receptor class B 5

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

524_566

1167.0

Repeat

Note=LDL-receptor class B 6

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

567_609

1167.0

Repeat

Note=LDL-receptor class B 7

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

610_653

1167.0

Repeat

Note=LDL-receptor class B 8

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

654_696

1167.0

Repeat

Note=LDL-receptor class B 9

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

86_127

1167.0

Repeat

Note=LDL-receptor class B 1

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

1054_1207

911.3333333333334

1208.0

Topological domain

Cytoplasmic

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

1054_1207

1167.0

Topological domain

Cytoplasmic

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

23_1032

1167.0

Topological domain

Extracellular

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

1054_1207

869.3333333333334

1166.0

Topological domain

Cytoplasmic

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

1033_1053

911.3333333333334

1208.0

Transmembrane

Helical

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000503392

1033_1053

1167.0

Transmembrane

Helical

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

1033_1053

869.3333333333334

1166.0

Transmembrane

Helical

- 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

SEC16B

chr1:177927269

chr4:110914401

ENST00000308284

271_713

455.0

1061.0

Region

Central conserved domain (CCD)%3B required for localization to endoplasmic reticulum exit sites

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

356_396

911.3333333333334

1208.0

Domain

EGF-like 2%3B calcium-binding

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

397_437

911.3333333333334

1208.0

Domain

EGF-like 3

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

435_477

911.3333333333334

1208.0

Domain

EGF-like 4

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

741_781

911.3333333333334

1208.0

Domain

EGF-like 5

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

831_869

911.3333333333334

1208.0

Domain

EGF-like 6

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

870_911

911.3333333333334

1208.0

Domain

EGF-like 7%3B calcium-binding

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

356_396

869.3333333333334

1166.0

Domain

EGF-like 2%3B calcium-binding

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

397_437

869.3333333333334

1166.0

Domain

EGF-like 3

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

435_477

869.3333333333334

1166.0

Domain

EGF-like 4

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

741_781

869.3333333333334

1166.0

Domain

EGF-like 5

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

831_869

869.3333333333334

1166.0

Domain

EGF-like 6

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

801_807

911.3333333333334

1208.0

Region

Note=O-glycosylated at one site

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

801_807

869.3333333333334

1166.0

Region

Note=O-glycosylated at one site

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

128_169

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 2

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

170_211

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 3

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

212_258

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 4

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

483_523

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 5

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

524_566

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 6

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

567_609

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 7

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

610_653

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 8

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

654_696

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 9

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

86_127

911.3333333333334

1208.0

Repeat

Note=LDL-receptor class B 1

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

128_169

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 2

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

170_211

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 3

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

212_258

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 4

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

483_523

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 5

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

524_566

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 6

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

567_609

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 7

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

610_653

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 8

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

654_696

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 9

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

86_127

869.3333333333334

1166.0

Repeat

Note=LDL-receptor class B 1

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000265171

23_1032

911.3333333333334

1208.0

Topological domain

Extracellular

Tgene

EGF

chr1:177927269

chr4:110914401

ENST00000509793

23_1032

869.3333333333334

1166.0

Topological domain

Extracellular

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 >>>1082_SEC16B_177927269_EGF_110914401_1082_SEC16B_177927269_EGF_110914401_ranked_0.pdb	SEC16B	177927269	177927269	ENST00000265171	EGF	chr4	110914401	+	MHNLLKTQDKFRESRMELWAPQRLPQTRGKATAPSKDPDRGFRRDGHHRPVPHSWHNGERFHQWQDNRGSPQPQQEPRADHQQQPHYASR PGDWHQPVSGVDYYEGGYRNQLYSRPGYENSYQSYQSPTMREEYAYGSYYYHGHPQWLQEERVPRQRSPYIWHEDYREQKYLDEHHYENQ HSPFGTNSETHFQSNSRNPCKDSPASNSGQEWPGELFPGSLLAEAQKNKPSLASESNLLQQRESGLSSSSYELSQYIRDAPERDDPPASA AWSPVQAEDVSSAGPKAPMKFYIPHVPVSFGPGGQLVHVGPSSPTDGQAALVELHSMEVILNDSEEQEEMRSFSGPLIREDVHKVDIMTF CQQKAAQSCKSETLGSRDSALLWQLLVLLCRQNGSMVGSDIAELLMQDCKKLEKYKRQPPVANLINLTDEDWPVLSSGTPNLLTGEIPPS	508

Top

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.

SEC16B_pLDDT.png

EGF_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.

Top

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
SEC16B
EGF

- 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 SEC16B-EGF

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

Hgene

Tgene

Drug

Source

PMID

Top

Related Diseases to SEC16B-EGF

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