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Center for Computational Systems Medicine level3
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein Structure

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pLDDT scores

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Ramachandran Plot of Fusion Protein Structure

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Potential Active Site Information

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Potentially Interacting Small Molecules through Virtual Screening

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Biochemical Features of Small Molecules with ADME

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Drug Toxicity Information

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:CCDC6-RET

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: CCDC6-RET
FusionPDB ID: 13896
FusionGDB2.0 ID: 13896
HgeneTgene
Gene symbol

CCDC6

RET

Gene ID

8030

5979

Gene namecoiled-coil domain containing 6ret proto-oncogene
SynonymsD10S170|H4|PTC|TPC|TST1CDHF12|CDHR16|HSCR1|MEN2A|MEN2B|MTC1|PTC|RET-ELE1
Cytomap

10q21.2

10q11.21

Type of geneprotein-codingprotein-coding
Descriptioncoiled-coil domain-containing protein 6papillary thyroid carcinoma-encoded proteinproto-oncogene tyrosine-protein kinase receptor RetRET receptor tyrosine kinasecadherin family member 12cadherin-related family member 16proto-oncogene c-Retrearranged during transfectionret proto-oncogene (multiple endocrine neoplasia and medullary
Modification date2020032720200322
UniProtAcc

A6NI79

RTL1

Ensembl transtripts involved in fusion geneENST idsENST00000263102, ENST00000340058, 
ENST00000355710, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score15 X 22 X 10=330032 X 31 X 11=10912
# samples 3848
** MAII scorelog2(38/3300*10)=-3.11839470080223
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(48/10912*10)=-4.50673733341565
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: CCDC6 [Title/Abstract] AND RET [Title/Abstract] AND fusion [Title/Abstract]

RET, ROS1 and ALK fusions in lung cancer (pmid: 22327623)
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)CCDC6(61665880)-RET(43612032), # samples:54
RET(43610184)-CCDC6(61612460), # samples:2
Anticipated loss of major functional domain due to fusion event.CCDC6-RET 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.
CCDC6-RET 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.
CCDC6-RET 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.
CCDC6-RET 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.
RET-CCDC6 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.
RET-CCDC6 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.
CCDC6-RET seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
CCDC6-RET seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
CCDC6-RET seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
CCDC6-RET seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
CCDC6-RET seems lost the major protein functional domain in Tgene partner, which is a kinase 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneRET

GO:0030155

regulation of cell adhesion

21357690

TgeneRET

GO:0030335

positive regulation of cell migration

20702524

TgeneRET

GO:0033619

membrane protein proteolysis

21357690

TgeneRET

GO:0033630

positive regulation of cell adhesion mediated by integrin

20702524

TgeneRET

GO:0035860

glial cell-derived neurotrophic factor receptor signaling pathway

28953886

TgeneRET

GO:0043410

positive regulation of MAPK cascade

28846099


check buttonFusion gene breakpoints across CCDC6 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across RET (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
check button 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4COADTCGA-CM-4743-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4LUADTCGA-75-6203-01ACCDC6chr10

61665879

-RETchr10

43612031

+
ChimerDB4LUADTCGA-75-6203-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4OVTCGA-24-2298-01ACCDC6chr10

61665880

-RETchr10

43595907

+
ChimerDB4THCATCGA-BJ-A0ZJ-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-BJ-A28Z-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-CE-A13K-01ACCDC6chr10

61554231

-RETchr10

43612032

+
ChimerDB4THCATCGA-DJ-A2Q1-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-DJ-A3V3-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-DJ-A4UQ-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-DJ-A4UQCCDC6chr10

61665879

-RETchr10

43612031

+
ChimerDB4THCATCGA-DJ-A4V5-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-DO-A1JZ-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-E3-A3E0-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-E3-A3E0CCDC6chr10

61665879

-RETchr10

43612031

+
ChimerDB4THCATCGA-E8-A44M-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-EL-A3CY-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-EL-A3TB-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-EL-A3ZP-01ACCDC6chr10

61665880

-RETchr10

43610035

+
ChimerDB4THCATCGA-EL-A3ZP-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-EL-A3ZS-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-EM-A3AN-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-ET-A39R-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-ET-A3DR-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-ET-A3DRCCDC6chr10

61665879

-RETchr10

43612031

+
ChimerDB4THCATCGA-ET-A40T-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-FK-A3SE-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-FK-A3SECCDC6chr10

61665879

-RETchr10

43612031

+
ChimerDB4THCATCGA-FK-A4UB-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-J8-A4HW-01ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerDB4THCATCGA-J8-A4HW-06ACCDC6chr10

61665880

-RETchr10

43612032

+
ChimerKB3..CCDC6chr10

61335968

-RETchr10

42930132

+
ChimerKB3..CCDC6chr10

61336223

-RETchr10

42932037

+
ChimerKB3..CCDC6chr10

61336243

-RETchr10

42932037

+
ChimerKB3..CCDC6chr10

61554230

-RETchr10

43609927

+
ChimerKB3..CCDC6chr10

61665879

-RETchr10

43612031

+
ChimerKB3..CCDC6chr10

61665880

-RETchr10

43612031

+
ChimerKB3..CCDC6chr10

61665880

-RETchr10

43612032

+
ChimerKB3..CCDC6chr10

61665962

-RETchr10

43610127

+
ChimerKB3..CCDC6chr10

61665962

-RETchr10

43612031

+
ChimerKB3..CCDC6chr10

61666182

-RETchr10

43612031

+
ChimerKB3..CCDC6chr10

61666182

-RETchr10

43612032

+
ChimerKB3..CCDC6chr10

61666217

-RETchr10

43612031

+
ChimerKB3..CCDC6chr10

61666217

-RETchr10

43612032

+
ChimerKB3..CCDC6chr10

61666237

-RETchr10

43612032

+
ChimerKB4..CCDC6chr10

61665880

-RETchr10

43612031

+
ChiTaRS5.0N/AAB698668CCDC6chr10

61665879

-RETchr10

43612032

+
ChiTaRS5.0N/AAB698669CCDC6chr10

61665879

-RETchr10

43612032

+
ChiTaRS5.0N/AAF395885CCDC6chr10

61665030

-RETchr10

43610127

+
ChiTaRS5.0N/AD90075CCDC6chr10

61665879

-RETchr10

43612032

+
ChiTaRS5.0N/AKU254649CCDC6chr10

61665879

-RETchr10

43612032

+
ChiTaRS5.0N/AM31213CCDC6chr10

61665879

-RETchr10

43612032

+


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000263102CCDC6chr1061665879-ENST00000355710RETchr1043612031+38265351091743544
ENST00000263102CCDC6chr1061665879-ENST00000340058RETchr1043612031+23685351091617502
ENST00000263102CCDC6chr1061665880-ENST00000355710RETchr1043612031+38265351091743544
ENST00000263102CCDC6chr1061665880-ENST00000340058RETchr1043612031+23685351091617502
ENST00000263102CCDC6chr1061665880-ENST00000355710RETchr1043612032+38265351091743544
ENST00000263102CCDC6chr1061665880-ENST00000340058RETchr1043612032+23685351091617502
ENST00000263102CCDC6chr1061665880-ENST00000355710RETchr1043612032+38265351091743544
ENST00000263102CCDC6chr1061665880-ENST00000340058RETchr1043612032+23685351091617502
ENST00000263102CCDC6chr1061554231-ENST00000355710RETchr1043612032+475314621092670853
ENST00000263102CCDC6chr1061554231-ENST00000340058RETchr1043612032+329514621092544811
ENST00000263102CCDC6chr1061665879-ENST00000355710RETchr1043612031+38265351091743544
ENST00000263102CCDC6chr1061665879-ENST00000340058RETchr1043612031+23685351091617502
ENST00000263102CCDC6chr1061665879-ENST00000355710RETchr1043612032+38265351091743544
ENST00000263102CCDC6chr1061665879-ENST00000340058RETchr1043612032+23685351091617502

check buttonDeepORF 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.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000263102ENST00000355710CCDC6chr1061665880-RETchr1043612032+0.0014115660.9985884
ENST00000263102ENST00000340058CCDC6chr1061665880-RETchr1043612032+0.0067429970.99325705
ENST00000263102ENST00000355710CCDC6chr1061554231-RETchr1043612032+0.0023123060.9976877
ENST00000263102ENST00000340058CCDC6chr1061554231-RETchr1043612032+0.0098426840.99015737
ENST00000263102ENST00000355710CCDC6chr1061665879-RETchr1043612031+0.0014115660.9985884
ENST00000263102ENST00000340058CCDC6chr1061665879-RETchr1043612031+0.0067429970.99325705
ENST00000263102ENST00000355710CCDC6chr1061665879-RETchr1043612032+0.0014115660.9985884
ENST00000263102ENST00000340058CCDC6chr1061665879-RETchr1043612032+0.0067429970.99325705

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Fusion Amino Acid Sequences


check button 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

>13896_13896_1_CCDC6-RET_CCDC6_chr10_61554231_ENST00000263102_RET_chr10_43612032_ENST00000340058_length(amino acids)=811AA_BP=451
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIQARAEQEEEFISNTLFKKIQALQKEKETLAVNYEKEEE
FLTNELSRKLMQLQHEKAELEQHLEQEQEFQVNKLMKKIKKLENDTISKQLTLEQLRREKIDLENTLEQEQEALVNRLWKRMDKLEAEKR
ILQEKLDQPVSAPPSPRDISMEIDSPENMMRHIRFLKNEVERLKKQLRAAQLQHSEKMAQYLEEERHMREENLRLQRKLQREMERREALC
RQLSESESSLEMDDERYFNEMSAQGLRPRTVSSPIPYTPSPSSSRPISPGLSYASHTVGFTPPTSLTRAGMSYYNSPGLHVQHMGTSHGI
TEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRAGYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLL
LIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDHPDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKIS
DFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTTQSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMY
RLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAASTPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGRISHAFTR

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

>13896_13896_2_CCDC6-RET_CCDC6_chr10_61554231_ENST00000263102_RET_chr10_43612032_ENST00000355710_length(amino acids)=853AA_BP=451
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIQARAEQEEEFISNTLFKKIQALQKEKETLAVNYEKEEE
FLTNELSRKLMQLQHEKAELEQHLEQEQEFQVNKLMKKIKKLENDTISKQLTLEQLRREKIDLENTLEQEQEALVNRLWKRMDKLEAEKR
ILQEKLDQPVSAPPSPRDISMEIDSPENMMRHIRFLKNEVERLKKQLRAAQLQHSEKMAQYLEEERHMREENLRLQRKLQREMERREALC
RQLSESESSLEMDDERYFNEMSAQGLRPRTVSSPIPYTPSPSSSRPISPGLSYASHTVGFTPPTSLTRAGMSYYNSPGLHVQHMGTSHGI
TEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRAGYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLL
LIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDHPDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKIS
DFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTTQSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMY
RLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAASTPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGMSDPNWPG

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

>13896_13896_3_CCDC6-RET_CCDC6_chr10_61665879_ENST00000263102_RET_chr10_43612031_ENST00000340058_length(amino acids)=502AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA

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

>13896_13896_4_CCDC6-RET_CCDC6_chr10_61665879_ENST00000263102_RET_chr10_43612031_ENST00000355710_length(amino acids)=544AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA
STPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGMSDPNWPGESPVPLTRADGTNTGFPRYPNDSVYANWMLSPSAAKLMD

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

>13896_13896_5_CCDC6-RET_CCDC6_chr10_61665879_ENST00000263102_RET_chr10_43612032_ENST00000340058_length(amino acids)=502AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA

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

>13896_13896_6_CCDC6-RET_CCDC6_chr10_61665879_ENST00000263102_RET_chr10_43612032_ENST00000355710_length(amino acids)=544AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA
STPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGMSDPNWPGESPVPLTRADGTNTGFPRYPNDSVYANWMLSPSAAKLMD

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

>13896_13896_7_CCDC6-RET_CCDC6_chr10_61665880_ENST00000263102_RET_chr10_43612031_ENST00000340058_length(amino acids)=502AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA

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

>13896_13896_8_CCDC6-RET_CCDC6_chr10_61665880_ENST00000263102_RET_chr10_43612031_ENST00000355710_length(amino acids)=544AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA
STPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGMSDPNWPGESPVPLTRADGTNTGFPRYPNDSVYANWMLSPSAAKLMD

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

>13896_13896_9_CCDC6-RET_CCDC6_chr10_61665880_ENST00000263102_RET_chr10_43612032_ENST00000340058_length(amino acids)=502AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA

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

>13896_13896_10_CCDC6-RET_CCDC6_chr10_61665880_ENST00000263102_RET_chr10_43612032_ENST00000355710_length(amino acids)=544AA_BP=65
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESDTDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGI
VISPFRLEELTNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFPRKNLVLGKTLGEGEFGKVVKATAFHLKGRA
GYTTVAVKMLKENASPSELRDLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESRKVGPGYLGSGGSRNSSSLDH
PDERALTMGDLISFAWQISQGMQYLAEMKLVHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAIESLFDHIYTT
QSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRMERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA
STPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGMSDPNWPGESPVPLTRADGTNTGFPRYPNDSVYANWMLSPSAAKLMD

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

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Fusion Protein Functional Features


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr10:61665880/chr10:43612032)
- 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.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CCDC6

A6NI79

RET

RTL1

FUNCTION: May act as a scaffold to regulate the recruitment and assembly of spindle midzone components. Required for the localization of AURKB and PLK1 to the spindle midzone. {ECO:0000305|PubMed:20962590}.1358

check buttonRetention 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.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89253_332410.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-8953_237410.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-8917_20410.0475.0Compositional biasNote=Poly-Ser
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-8932_44410.0475.0Compositional biasNote=Poly-Gly
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-1917_20101.0475.0Compositional biasNote=Poly-Ser
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-1932_44101.0475.0Compositional biasNote=Poly-Gly
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-1917_20101.0475.0Compositional biasNote=Poly-Ser
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-1932_44101.0475.0Compositional biasNote=Poly-Gly
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-1917_20101.0475.0Compositional biasNote=Poly-Ser
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-1932_44101.0475.0Compositional biasNote=Poly-Gly
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89106_235410.0475.0RegionNote=5 X 29 AA tandem repeats
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89106_134410.0475.0RepeatNote=1
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89135_163410.0475.0RepeatNote=2
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89164_192410.0475.0RepeatNote=3
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89193_206410.0475.0RepeatNote=4%3B approximate
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89207_235410.0475.0RepeatNote=5
TgeneRETchr10:61554231chr10:43612032ENST000003400581019724_1016712.01073.0DomainProtein kinase
TgeneRETchr10:61554231chr10:43612032ENST000003557101020724_1016712.01115.0DomainProtein kinase
TgeneRETchr10:61665879chr10:43612031ENST000003400581019724_1016712.01073.0DomainProtein kinase
TgeneRETchr10:61665879chr10:43612031ENST000003557101020724_1016712.01115.0DomainProtein kinase
TgeneRETchr10:61665879chr10:43612032ENST000003400581019724_1016712.01073.0DomainProtein kinase
TgeneRETchr10:61665879chr10:43612032ENST000003557101020724_1016712.01115.0DomainProtein kinase
TgeneRETchr10:61665880chr10:43612032ENST000003400581019724_1016712.01073.0DomainProtein kinase
TgeneRETchr10:61665880chr10:43612032ENST000003557101020724_1016712.01115.0DomainProtein kinase
TgeneRETchr10:61554231chr10:43612032ENST000003400581019730_738712.01073.0Nucleotide bindingATP
TgeneRETchr10:61554231chr10:43612032ENST000003557101020730_738712.01115.0Nucleotide bindingATP
TgeneRETchr10:61665879chr10:43612031ENST000003400581019730_738712.01073.0Nucleotide bindingATP
TgeneRETchr10:61665879chr10:43612031ENST000003557101020730_738712.01115.0Nucleotide bindingATP
TgeneRETchr10:61665879chr10:43612032ENST000003400581019730_738712.01073.0Nucleotide bindingATP
TgeneRETchr10:61665879chr10:43612032ENST000003557101020730_738712.01115.0Nucleotide bindingATP
TgeneRETchr10:61665880chr10:43612032ENST000003400581019730_738712.01073.0Nucleotide bindingATP
TgeneRETchr10:61665880chr10:43612032ENST000003557101020730_738712.01115.0Nucleotide bindingATP
TgeneRETchr10:61554231chr10:43612032ENST000003400581019805_807712.01073.0RegionNote=Inhibitors binding
TgeneRETchr10:61554231chr10:43612032ENST000003557101020805_807712.01115.0RegionNote=Inhibitors binding
TgeneRETchr10:61665879chr10:43612031ENST000003400581019805_807712.01073.0RegionNote=Inhibitors binding
TgeneRETchr10:61665879chr10:43612031ENST000003557101020805_807712.01115.0RegionNote=Inhibitors binding
TgeneRETchr10:61665879chr10:43612032ENST000003400581019805_807712.01073.0RegionNote=Inhibitors binding
TgeneRETchr10:61665879chr10:43612032ENST000003557101020805_807712.01115.0RegionNote=Inhibitors binding
TgeneRETchr10:61665880chr10:43612032ENST000003400581019805_807712.01073.0RegionNote=Inhibitors binding
TgeneRETchr10:61665880chr10:43612032ENST000003557101020805_807712.01115.0RegionNote=Inhibitors binding

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19253_332101.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-1953_237101.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19253_332101.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-1953_237101.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19253_332101.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-1953_237101.0475.0Coiled coilOntology_term=ECO:0000255
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89440_448410.0475.0Compositional biasNote=Poly-Pro
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19440_448101.0475.0Compositional biasNote=Poly-Pro
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19440_448101.0475.0Compositional biasNote=Poly-Pro
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19440_448101.0475.0Compositional biasNote=Poly-Pro
HgeneCCDC6chr10:61554231chr10:43612032ENST00000263102-89442_451410.0475.0MotifSH3-binding
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19442_451101.0475.0MotifSH3-binding
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19442_451101.0475.0MotifSH3-binding
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19442_451101.0475.0MotifSH3-binding
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19106_235101.0475.0RegionNote=5 X 29 AA tandem repeats
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19106_235101.0475.0RegionNote=5 X 29 AA tandem repeats
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19106_235101.0475.0RegionNote=5 X 29 AA tandem repeats
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19106_134101.0475.0RepeatNote=1
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19135_163101.0475.0RepeatNote=2
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19164_192101.0475.0RepeatNote=3
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19193_206101.0475.0RepeatNote=4%3B approximate
HgeneCCDC6chr10:61665879chr10:43612031ENST00000263102-19207_235101.0475.0RepeatNote=5
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19106_134101.0475.0RepeatNote=1
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19135_163101.0475.0RepeatNote=2
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19164_192101.0475.0RepeatNote=3
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19193_206101.0475.0RepeatNote=4%3B approximate
HgeneCCDC6chr10:61665879chr10:43612032ENST00000263102-19207_235101.0475.0RepeatNote=5
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19106_134101.0475.0RepeatNote=1
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19135_163101.0475.0RepeatNote=2
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19164_192101.0475.0RepeatNote=3
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19193_206101.0475.0RepeatNote=4%3B approximate
HgeneCCDC6chr10:61665880chr10:43612032ENST00000263102-19207_235101.0475.0RepeatNote=5
TgeneRETchr10:61554231chr10:43612032ENST000003400581019168_272712.01073.0DomainCadherin
TgeneRETchr10:61554231chr10:43612032ENST000003557101020168_272712.01115.0DomainCadherin
TgeneRETchr10:61665879chr10:43612031ENST000003400581019168_272712.01073.0DomainCadherin
TgeneRETchr10:61665879chr10:43612031ENST000003557101020168_272712.01115.0DomainCadherin
TgeneRETchr10:61665879chr10:43612032ENST000003400581019168_272712.01073.0DomainCadherin
TgeneRETchr10:61665879chr10:43612032ENST000003557101020168_272712.01115.0DomainCadherin
TgeneRETchr10:61665880chr10:43612032ENST000003400581019168_272712.01073.0DomainCadherin
TgeneRETchr10:61665880chr10:43612032ENST000003557101020168_272712.01115.0DomainCadherin
TgeneRETchr10:61554231chr10:43612032ENST00000340058101929_635712.01073.0Topological domainExtracellular
TgeneRETchr10:61554231chr10:43612032ENST000003400581019658_1114712.01073.0Topological domainCytoplasmic
TgeneRETchr10:61554231chr10:43612032ENST00000355710102029_635712.01115.0Topological domainExtracellular
TgeneRETchr10:61554231chr10:43612032ENST000003557101020658_1114712.01115.0Topological domainCytoplasmic
TgeneRETchr10:61665879chr10:43612031ENST00000340058101929_635712.01073.0Topological domainExtracellular
TgeneRETchr10:61665879chr10:43612031ENST000003400581019658_1114712.01073.0Topological domainCytoplasmic
TgeneRETchr10:61665879chr10:43612031ENST00000355710102029_635712.01115.0Topological domainExtracellular
TgeneRETchr10:61665879chr10:43612031ENST000003557101020658_1114712.01115.0Topological domainCytoplasmic
TgeneRETchr10:61665879chr10:43612032ENST00000340058101929_635712.01073.0Topological domainExtracellular
TgeneRETchr10:61665879chr10:43612032ENST000003400581019658_1114712.01073.0Topological domainCytoplasmic
TgeneRETchr10:61665879chr10:43612032ENST00000355710102029_635712.01115.0Topological domainExtracellular
TgeneRETchr10:61665879chr10:43612032ENST000003557101020658_1114712.01115.0Topological domainCytoplasmic
TgeneRETchr10:61665880chr10:43612032ENST00000340058101929_635712.01073.0Topological domainExtracellular
TgeneRETchr10:61665880chr10:43612032ENST000003400581019658_1114712.01073.0Topological domainCytoplasmic
TgeneRETchr10:61665880chr10:43612032ENST00000355710102029_635712.01115.0Topological domainExtracellular
TgeneRETchr10:61665880chr10:43612032ENST000003557101020658_1114712.01115.0Topological domainCytoplasmic
TgeneRETchr10:61554231chr10:43612032ENST000003400581019636_657712.01073.0TransmembraneHelical
TgeneRETchr10:61554231chr10:43612032ENST000003557101020636_657712.01115.0TransmembraneHelical
TgeneRETchr10:61665879chr10:43612031ENST000003400581019636_657712.01073.0TransmembraneHelical
TgeneRETchr10:61665879chr10:43612031ENST000003557101020636_657712.01115.0TransmembraneHelical
TgeneRETchr10:61665879chr10:43612032ENST000003400581019636_657712.01073.0TransmembraneHelical
TgeneRETchr10:61665879chr10:43612032ENST000003557101020636_657712.01115.0TransmembraneHelical
TgeneRETchr10:61665880chr10:43612032ENST000003400581019636_657712.01073.0TransmembraneHelical
TgeneRETchr10:61665880chr10:43612032ENST000003557101020636_657712.01115.0TransmembraneHelical


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Fusion Protein Structures

check button 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)HgeneHchrHbpHstrandTgeneTchrTbpTstrandAA seqLen(AA seq)
PDB file (304) >>>304.pdbFusion protein BP residue: 65
CIF file (304) >>>304.cif		CCDC6chr1061665879-RETchr1043612031+
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESD
TDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGIVISPFRLEEL
TNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFP
RKNLVLGKTLGEGEFGKVVKATAFHLKGRAGYTTVAVKMLKENASPSELR
DLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESR
KVGPGYLGSGGSRNSSSLDHPDERALTMGDLISFAWQISQGMQYLAEMKL
VHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAI
ESLFDHIYTTQSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRM
ERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA
STPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGRISHAFT
502
3D view using mol* of 304 (AA BP:65)
PDB file (381) >>>381.pdbFusion protein BP residue: 65
CIF file (381) >>>381.cif		CCDC6chr1061665879-RETchr1043612031+
MVPGAQLGAPLCSPGAHSFAARPSSPPPPCCSSSFPQPAAAMADSASESD
TDGAGGNSSSSAAMQSSCSSTSGGGGGGGGGGGGGKSGGIVISPFRLEEL
TNRLASLQQENKVLKIELETYKLKCKALQEENRDLRKASVTIEDPKWEFP
RKNLVLGKTLGEGEFGKVVKATAFHLKGRAGYTTVAVKMLKENASPSELR
DLLSEFNVLKQVNHPHVIKLYGACSQDGPLLLIVEYAKYGSLRGFLRESR
KVGPGYLGSGGSRNSSSLDHPDERALTMGDLISFAWQISQGMQYLAEMKL
VHRDLAARNILVAEGRKMKISDFGLSRDVYEEDSYVKRSQGRIPVKWMAI
ESLFDHIYTTQSDVWSFGVLLWEIVTLGGNPYPGIPPERLFNLLKTGHRM
ERPDNCSEEMYRLMLQCWKQEPDKRPVFADISKDLEKMMVKRRDYLDLAA
STPSDSLIYDDGLSEEETPLVDCNNAPLPRALPSTWIENKLYGMSDPNWP
544
3D view using mol* of 381 (AA BP:65)


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pLDDT score distribution

check button 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.
CCDC6_pLDDT.png
all structure
all structure
RET_pLDDT.png
all structure
all structure

check button pLDDT score distribution of the predicted fusion protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.
CCDC6_RET_304_pLDDT.png (AA BP:65)
all structure
CCDC6_RET_304_pLDDT_and_active_sites.png (AA BP:65)
all structure
CCDC6_RET_304_violinplot.png (AA BP:65)
all structure
CCDC6_RET_381_pLDDT.png (AA BP:65)
all structure
CCDC6_RET_381_pLDDT_and_active_sites.png (AA BP:65)
all structure
CCDC6_RET_381_violinplot.png (AA BP:65)
all structure


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Ramachandran Plot of Fusion Protein Structure


check button 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
CCDC6_RET_304.png
all structure
CCDC6_RET_381.png
all structure

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Potential Active Site Information


check button The potential binding sites of these fusion proteins were identified using SiteMap, a module of the Schrodinger suite.
Fusion AA seq ID in FusionPDBSite scoreSizeD scoreVolumeExposureEnclosureContactPhobicPhilicBalanceDon/AccResidues
3041.1141191.165290.1780.4540.7880.9931.470.7591.9370.989Chain A: 160,161,162,163,164,165,166,168,186,188,2
05,209,218,232,234,235,236,237,238,240,241,308,309
,311,321,322
3811.0221410.977416.4020.5320.7311.0450.5231.2330.4240.982Chain A: 158,159,160,170,236,238,239,240,243,244,2
45,247,248,249,250,252,270,272,273,274,275,276,316
,521,522,523,524,525,526,527,528

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Potentially Interacting Small Molecules through Virtual Screening


check button The FDA-approved small molecule library molecules were subjected to virtual screening using the Glide.
Fusion AA seq ID in FusionPDBZINC IDDrugBank IDDrug nameDocking scoreGlide gscore
304ZINC000019632917DB00475Chlordiazepoxide-8.56813-8.61603
304ZINC000008214418DB09135Ioxilan-8.54347-8.54347
304ZINC000008035395DB09134Ioversol-8.11427-8.11427
304ZINC000003830944DB01362Iohexol-8.04338-8.04338
304ZINC000004098633DB11263Polydatin-8.03079-8.03079
304PexidartinibDB11263-7.73241-7.94921
304ZINC000003827556DB11943Delafloxacin-6.20022-7.76602
304ZINC000003778874DB01006Letrozole-7.756-7.756
304ZINC000000897089DB00358Mefloquine-7.61351-7.61601
304BaricitinibDB00358-7.48414-7.48414
304ZINC000013818943DB06213Regadenoson-7.42863-7.42863
304ZINC000008035377DB01362Iohexol-7.4178-7.4178
304ZINC000003830947DB08947Iopamidol-7.31264-7.31264
304ZINC000013537284DB00969Alosetron-6.37313-7.27643
304ZINC000022059926DB01155Gemifloxacin-7.15311-7.19401
304ZINC000000001735DB00350Minoxidil-7.11948-7.11948
304ZINC000001886617DB01095Fluvastatin-7.10821-7.11001
304ZINC000000020243DB00861Diflunisal-7.10907-7.10907
304ZINC000001999487DB00751Epinastine-5.46478-7.10888
304ZINC000049841054DB08889Carfilzomib-7.10477-7.10727

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check button Drug information from DrugBank of the top 20 interacting small molecules.
ZINC IDDrugBank IDDrug nameDrug typeSMILESDrug group
ZINC000019632917DB00475ChlordiazepoxideSmall moleculeCNC1=NC2=C(C=C(Cl)C=C2)C(C2=CC=CC=C2)=[N+]([O-])C1Approved|Illicit|Investigational
ZINC000008214418DB09135IoxilanSmall moleculeCC(=O)N(CC(O)CO)C1=C(I)C(C(=O)NCC(O)CO)=C(I)C(C(=O)NCCO)=C1IApproved
ZINC000004098633DB11263PolydatinSmall moleculeOC[C@H]1O[C@@H](OC2=CC(C=CC3=CC=C(O)C=C3)=CC(O)=C2)[C@H](O)[C@@H](O)[C@@H]1OApproved
ZINC000003827556DB11943DelafloxacinSmall moleculeNC1=NC(N2C=C(C(O)=O)C(=O)C3=CC(F)=C(N4CC(O)C4)C(Cl)=C23)=C(F)C=C1FApproved|Investigational
ZINC000003778874DB01006LetrozoleSmall moleculeN#CC1=CC=C(C=C1)C(N1C=NC=N1)C1=CC=C(C=C1)C#NApproved|Investigational
ZINC000013818943DB06213RegadenosonSmall moleculeCNC(=O)C1=CN(N=C1)C1=NC2=C(N=CN2[C@@H]2O[C@H](CO)[C@@H](O)[C@H]2O)C(N)=N1Approved|Investigational
ZINC000008035377DB01362IohexolSmall moleculeCC(=O)N(CC(O)CO)C1=C(I)C(C(=O)NCC(O)CO)=C(I)C(C(=O)NCC(O)CO)=C1IApproved
ZINC000003830947DB08947IopamidolSmall moleculeC[C@H](O)C(=O)NC1=C(I)C(C(=O)NC(CO)CO)=C(I)C(C(=O)NC(CO)CO)=C1IApproved
ZINC000013537284DB00969AlosetronSmall moleculeCN1C2=C(C3=CC=CC=C13)C(=O)N(CC1=C(C)NC=N1)CC2Approved|Withdrawn
ZINC000000001735DB00350MinoxidilSmall moleculeNC1=CC(=NC(N)=[N+]1[O-])N1CCCCC1Approved|Investigational
ZINC000001886617DB01095FluvastatinSmall moleculeCC(C)N1C(C=C[C@H](O)C[C@H](O)CC(O)=O)=C(C2=CC=C(F)C=C2)C2=CC=CC=C12Approved
ZINC000000020243DB00861DiflunisalSmall moleculeOC(=O)C1=C(O)C=CC(=C1)C1=C(F)C=C(F)C=C1Approved|Investigational
ZINC000001999487DB00751EpinastineSmall moleculeNC1=NCC2N1C1=CC=CC=C1CC1=CC=CC=C21Approved|Investigational
ZINC000049841054DB08889CarfilzomibSmall moleculeCC(C)C[C@H](NC(=O)[C@H](CCC1=CC=CC=C1)NC(=O)CN1CCOCC1)C(=O)N[C@@H](CC1=CC=CC=C1)C(=O)N[C@@H](CC(C)C)C(=O)[C@@]1(C)CO1Approved|Investigational

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Biochemical Features of Small Molecules


check button ADME (Absorption, Distribution, Metabolism, and Excretion) of drugs using QikProp(v3.9)
ZINC IDmol_MWdipoleSASAFOSAFISAPISAWPSAvolumedonorHBaccptHBIPHuman Oral AbsorptionPercent Human Oral AbsorptionRule Of FiveRule Of Three
ZINC000019632917299.7594.645553.04137.02264.707279.78871.524941.819138.565310000
ZINC000019632917299.7595.502549.003118.96574.766283.8271.453935.577138.408310000
ZINC000008214418791.1161.945763.111318.983317.0489.77117.311418.936716.59.19911.20931
ZINC000008035395807.11612.861789.663274.386383.30110.854121.1231453.819818.29.4271031
ZINC000003830944821.1433.746800.499332.755343.8249.483114.4361490.981818.29.7011031
ZINC000004098633390.3897.667669.829130.628272.364266.83701181.188610.758.482240.08510
ZINC000003827556440.7657.343641.991114.171269.717120.689137.4141132.35936.78.856257.44801
ZINC000003827556440.7659.028639.547117.652265.215120.459136.2211128.10136.79.031258.22101
ZINC000003778874285.3074.935563.3488.891187.248367.2080952.2610610.36375.7300
ZINC000000897089378.3177.024589.936192.76554.441122.198220.5321034.58724.29.632310000
ZINC000013818943390.3589.438610.126176.989300.388132.74901099.984614.38.883211.79121
ZINC000008035377821.1433.933852.229318.386383.77934.853115.211549.947818.29.6981031
ZINC000003830947777.096.063732.513308.58284.54921.693117.6911366.3938168.95316.98331
ZINC000013537284294.35511.018558.659261.63964.423232.5970975.98514.58.467310000
ZINC000013537284294.3552.688556.854260.96665.507230.3810971.56114.58.221310000
ZINC000013537284294.35511.062555.086259.10266.238229.7460970.70114.58.471310000
ZINC000022059926389.3855.386675.076333.398232.63867.9641.081199.52228.79.053236.53501
ZINC000022059926389.3854.357656.741321.575225.55768.44141.1671178.17628.79.183237.34601
ZINC000000001735209.255.141437.436217.593169.97449.8690711.86443.57.733376.87300
ZINC000001886617411.4725.013697.101243.2165.521241.76846.6121293.66524.48.26277.29910
ZINC000000020243250.2018.261459.0810144.436231.00583.64751.87911.759.879386.60100
ZINC000001999487249.3154.843470.73292.01778.034300.6810820.861228.106310000
ZINC000001999487249.3153.771466.46287.17478.719300.5690823.506228.486310000
ZINC000049841054719.923.8461117.468721.00399.711296.75402246.4360.7514.459.194156.80621


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Drug Toxicity Information


check button Toxicity information of individual drugs using eToxPred
ZINC IDSmileSurface AccessibilityToxicity
ZINC000019632917CNC1=Nc2ccc(Cl)cc2C(c2ccccc2)=[N+]([O-])C10.1473206730.447326601
ZINC000008214418CC(=O)N(C[C@H](O)CO)c1c(I)c(C(=O)NCCO)c(I)c(C(=O)NC[C@H](O)CO)c1I0.0550759120.216199147
ZINC000008035395O=C(NC[C@@H](O)CO)c1c(I)c(C(=O)NC[C@@H](O)CO)c(I)c(N(CCO)C(=O)CO)c1I0.0517806690.23149478
ZINC000003830944CC(=O)N(C[C@@H](O)CO)c1c(I)c(C(=O)NC[C@H](O)CO)c(I)c(C(=O)NC[C@H](O)CO)c1I0.0423322430.211666342
ZINC000004098633OC[C@H]1O[C@@H](Oc2cc(O)cc(/C=C/c3ccc(O)cc3)c2)[C@H](O)[C@@H](O)[C@@H]1O0.0678823180.512213372
ZINC000003827556Nc1nc(-n2cc(C(=O)O)c(=O)c3cc(F)c(N4CC(O)C4)c(Cl)c32)c(F)cc1F0.1372155140.181774775
ZINC000003778874N#Cc1ccc(C(c2ccc(C#N)cc2)n2cncn2)cc10.2506727410.51627368
ZINC000000897089O[C@H](c1cc(C(F)(F)F)nc2c(C(F)(F)F)cccc12)[C@@H]1CCCCN10.0827248270.290697747
ZINC000013818943CNC(=O)c1cnn(-c2nc(N)c3ncn([C@@H]4O[C@H](CO)[C@@H](O)[C@H]4O)c3n2)c10.0569500780.195718995
ZINC000008035377CC(=O)N(C[C@@H](O)CO)c1c(I)c(C(=O)NC[C@@H](O)CO)c(I)c(C(=O)NC[C@@H](O)CO)c1I0.0423322430.211666342
ZINC000003830947C[C@H](O)C(=O)Nc1c(I)c(C(=O)NC(CO)CO)c(I)c(C(=O)NC(CO)CO)c1I0.0734655710.438210227
ZINC000013537284Cc1nc[nH]c1CN1CCc2c(c3ccccc3n2C)C1=O0.1673991990.254688426
ZINC000022059926CO/N=C1CN(c2nc3c(cc2F)c(=O)c(C(=O)O)cn3C2CC2)C[C@@H]1CN0.0776115140.258972331
ZINC000000001735Nc1cc(N2CCCCC2)nc(N)[n+]1[O-]0.1297409460.395964399
ZINC000001886617CC(C)n1c(/C=C/[C@@H](O)C[C@@H](O)CC(=O)O)c(-c2ccc(F)cc2)c2ccccc210.1011703060.183209327
ZINC000000020243O=C(O)c1cc(-c2ccc(F)cc2F)ccc1O0.4404093730.371648269
ZINC000001999487NC1=NC[C@H]2c3ccccc3Cc3ccccc3N120.1494885010.300300567
ZINC000049841054CC(C)C[C@H](NC(=O)[C@H](CCc1ccccc1)NC(=O)CN1CCOCC1)C(=O)N[C@@H](Cc1ccccc1)C(=O)N[C@@H](CC(C)C)C(=O)[C@@]1(C)CO10.0458317240.177798441


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Fusion Protein-Protein Interaction


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)
GenePPI interactors
CCDC6PPP4C, USP7, CREB1, ATF2, PPP1CA, HDAC1, ELAVL1, CUL1, SKP1, FBXW7, CSNK2A1, YWHAB, BRCC3, SF3A1, CD2AP, GAPVD1, HNRNPR, NR3C1, PAAF1, PPP4R2, TRIM28, PPP2R1A, CEP170, PPP2CB, RASSF7, ZNF444, TCL1B, MAFF, DDI2, NUDC, SARS, SEPT2, NTRK1, XPO1, P4HB, PPP2CA, PPP4R1, POLG2, Ppp2ca, Ppp2r1a, Ppp4c, GSK3B, CCNB1, CDK1, MTMR7, CEP55, TRPC4AP, C1S, RALBP1, MTUS2, LZTS3, EXOC1, ZNF331, PDE4DIP, FBXO42, CCDC102A, SMEK2, SMEK1, TCP10L, PCBP3, APC, LPXN, ZNF445, NECAB1, RPTOR, TRIM25, EGLN3, TNIP2, KIAA1429, UBE2I, PPP1CC, CSK, KRAS, PLK1, CLUAP1, PAX6, SNAPC1, CENPQ, WAC, CYTH4, TFIP11, LUZP4, MEOX2, TRIM14, LHX3, CCDC6, SORBS3, PIN1, ZNF835, CCDC136, CCDC33, GAS8, LRSAM1, SH3RF1, MAPK7, ATF5, ZNF620, ZNF354C, ZNF250, ZNF774, BAP1, PFN1, TPM3, MAFK, MAP7, YWHAH, TFPT, BCHE, CEP170P1, USP15, MAX, YWHAG, TUBGCP5, HDDC3, CHCHD4, DNAJB6, GOLGA2, MRPL42, KIF1B, PYCRL, WIF1, EP300, SIRT6,
RETSTAT3, DOK6, DOK5, SRC, SHC1, PTPRF, DOK2, DOK4, DOK1, GRB2, CRK, PLCG1, PDLIM7, GRB7, FRS2, NRTN, GFRA1, GRB10, IKBKG, MCRS1, CBL, CBLC, RET, HSP90AA1, NOTCH2NL, NOTCH3, AIP, EGFR, NTRK1, ZBTB48, HNRNPD, SORT1, SYNCRIP, SGTB, BAG6, HIST1H3A, KYNU, TXNL4A, ZCCHC8, ICE2, MAPK3, PTK2, MAPK1, PTPRR, DUSP26, Shc1, PIK3R1, FBXO7, NEDD4, SHANK2, LRRK1, PTK6, CTNNB1, SHC4, ERBB2, ADAM10, SPINT2, PCDH7, LRIG2, APP, GDNF, IGF1R, CLU, EPCAM, CDH2, TGFBR1, PTK7, FAT1, DHCR24, SMN1, PCDH19, NCSTN, CERS2, CHP1, FANCD2, ITM2C, SEL1L, PCDHGB5, CKB, NRP1, PLXNB2, NCK2, CTNND1, TULP3, PTPN1, NF2, CRKL, CAMLG, NUMB, BASP1, ROR2, NOTCH2, PTPN13, ANK3, RAB3GAP1, PEA15, LLGL1, GPRIN3, RAPH1, MARK2, CYFIP1, ARC, GPRIN1, ANKLE2, VRK2, MIB1, PHACTR4, UNC5B, TMEM57, SYAP1, FAF2, ERBB2IP, FAM129B, KIAA1715, PEAK1, VANGL2, BAIAP2, EPN1, NUMBL, PRKAR2A, GAB1, PTPRA, DDX39A, TIMP1, EPHB4, MANEA, SRY, RABAC1, LEMD3, TMEM214, PDZD8, GPR50, SMIM5, RNF149, SDF2L1, BMPR1A, PLEKHH3, ACVR2A,


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
CCDC6all structure
RETall structure


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to CCDC6-RET


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID
CCDC6RETPembrolizumabPubMed33845248

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Related Diseases to CCDC6-RET


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID
CCDC6RETPd-L1+ Lung AdenocarcinomaPubMed33845248
CCDC6RETUng AdenocarcinomaMyCancerGenome
CCDC6RETThyroid Gland Papillary CarcinomaMyCancerGenome
CCDC6RETPoorly Differentiated Thyroid Gland CarcinomaMyCancerGenome
CCDC6RETBreast Invasive Ductal CarcinomaMyCancerGenome
CCDC6RETThyroid Gland Undifferentiated (Anaplastic) CarcinomaMyCancerGenome

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCCDC6C0238463Papillary thyroid carcinoma2CTD_human;ORPHANET
HgeneCCDC6C3501843Nonmedullary Thyroid Carcinoma1CTD_human
HgeneCCDC6C3501844Familial Nonmedullary Thyroid Cancer1CTD_human
TgeneRETC1833921Familial medullary thyroid carcinoma23CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneRETC3888239HIRSCHSPRUNG DISEASE, SUSCEPTIBILITY TO, 116GENOMICS_ENGLAND;UNIPROT
TgeneRETC0025268Multiple Endocrine Neoplasia Type 2a15CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneRETC1708353Hereditary Paraganglioma-Pheochromocytoma Syndrome12CLINGEN
TgeneRETC0025269Multiple Endocrine Neoplasia Type 2b10CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneRETC0238463Papillary thyroid carcinoma3CTD_human;ORPHANET
TgeneRETC1275808Congenital central hypoventilation3CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneRETC1859049CCHS WITH HIRSCHSPRUNG DISEASE3CTD_human;ORPHANET
TgeneRETC0009402Colorectal Carcinoma2CTD_human;UNIPROT
TgeneRETC0009404Colorectal Neoplasms2CTD_human
TgeneRETC0019569Hirschsprung Disease2CTD_human
TgeneRETC0027662Multiple Endocrine Neoplasia2CTD_human;GENOMICS_ENGLAND
TgeneRETC0085758Aganglionosis, Colonic2CTD_human
TgeneRETC0266294Unilateral agenesis of kidney2ORPHANET
TgeneRETC1257840Aganglionosis, Rectosigmoid Colon2CTD_human
TgeneRETC3661523Congenital Intestinal Aganglionosis2CTD_human
TgeneRETC0006413Burkitt Lymphoma1CTD_human
TgeneRETC0031511Pheochromocytoma1CGI;CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneRETC0038220Status Epilepticus1CTD_human
TgeneRETC0040136Thyroid Neoplasm1CGI;CTD_human
TgeneRETC0151468Thyroid Gland Follicular Adenoma1CTD_human
TgeneRETC0206693Medullary carcinoma1CTD_human
TgeneRETC0238462Medullary carcinoma of thyroid1CGI;CTD_human
TgeneRETC0270823Petit mal status1CTD_human
TgeneRETC0311335Grand Mal Status Epilepticus1CTD_human
TgeneRETC0343640African Burkitt's lymphoma1CTD_human
TgeneRETC0393734Complex Partial Status Epilepticus1CTD_human
TgeneRETC0549473Thyroid carcinoma1CGI;CTD_human;UNIPROT
TgeneRETC0740340Amyloidosis, Familial1CTD_human
TgeneRETC0751522Status Epilepticus, Subclinical1CTD_human
TgeneRETC0751523Non-Convulsive Status Epilepticus1CTD_human
TgeneRETC0751524Simple Partial Status Epilepticus1CTD_human
TgeneRETC1257877Pheochromocytoma, Extra-Adrenal1CTD_human
TgeneRETC1609433Congenital absence of kidneys syndrome1CTD_human;GENOMICS_ENGLAND;ORPHANET
TgeneRETC3501843Nonmedullary Thyroid Carcinoma1CTD_human
TgeneRETC3501844Familial Nonmedullary Thyroid Cancer1CTD_human
TgeneRETC4721444Burkitt Leukemia1CTD_human