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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
	Potential Active Site Information
	Potentially Interacting Small Molecules through Virtual Screening
	Biochemical Features of Small Molecules with ADME
	Drug Toxicity Information
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:PAX5-KANK1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: PAX5-KANK1
	FusionPDB ID: 62952
	FusionGDB2.0 ID: 62952
		Hgene	Tgene
	Gene symbol	PAX5	KANK1
	Gene ID	5079	23189
	Gene name	paired box 5	KN motif and ankyrin repeat domains 1
	Synonyms	ALL3\|BSAP	ANKRD15\|CPSQ2\|KANK
	Cytomap	9p13.2	9p24.3
	Type of gene	protein-coding	protein-coding
	Description	paired box protein Pax-5B-cell lineage specific activatorpaired box homeotic gene 5paired domain gene 5transcription factor PAX 5	KN motif and ankyrin repeat domain-containing protein 1ankyrin repeat domain-containing protein 15kidney ankyrin repeat-containing protein
	Modification date	20200313	20200313
	UniProtAcc	Q02548	Q14678
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000358127, ENST00000377847, ENST00000377852, ENST00000377853, ENST00000446742, ENST00000520154, ENST00000522003, ENST00000523145, ENST00000523241, ENST00000414447, ENST00000520281,	ENST00000382293, ENST00000382297, ENST00000489369, ENST00000382303,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	15 X 15 X 7=1575	11 X 9 X 8=792
	# samples	10	12
	** MAII score	log2(10/1575*10)=-3.97727992349992 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(12/792*10)=-2.72246602447109 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: PAX5 [Title/Abstract] AND KANK1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)
Anticipated loss of major functional domain due to fusion event.	PAX5-KANK1 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF. PAX5-KANK1 seems lost the major protein functional domain in Hgene partner, which is a transcription factor due to the frame-shifted ORF. PAX5-KANK1 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF. PAX5-KANK1 seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor due to the frame-shifted ORF.

* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Tgene	KANK1	GO:0010977	negative regulation of neuron projection development	19171758
Tgene	KANK1	GO:0030177	positive regulation of Wnt signaling pathway	16968744
Tgene	KANK1	GO:0030837	negative regulation of actin filament polymerization	17996375\|18458160
Tgene	KANK1	GO:1900025	negative regulation of substrate adhesion-dependent cell spreading	19171758
Tgene	KANK1	GO:1900028	negative regulation of ruffle assembly	19171758
Tgene	KANK1	GO:2000393	negative regulation of lamellipodium morphogenesis	19171758

Fusion gene breakpoints across PAX5 (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 KANK1 (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
ChimerKB3	.	.	PAX5	chr9	37002644	-	KANK1	chr9	730049	+

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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)
ENST00000358127	PAX5	chr9	37002644	-	ENST00000382303	KANK1	chr9	730049	+	2910	679	75	2039	654
ENST00000523241	PAX5	chr9	37002644	-	ENST00000382303	KANK1	chr9	730049	+	2845	614	10	1974	654
ENST00000520154	PAX5	chr9	37002644	-	ENST00000382303	KANK1	chr9	730049	+	2845	614	10	1974	654
ENST00000377852	PAX5	chr9	37002644	-	ENST00000382303	KANK1	chr9	730049	+	2845	614	10	1974	654
ENST00000377853	PAX5	chr9	37002644	-	ENST00000382303	KANK1	chr9	730049	+	2845	614	10	1974	654
ENST00000446742	PAX5	chr9	37002644	-	ENST00000382303	KANK1	chr9	730049	+	2637	406	0	1766	588
ENST00000377847	PAX5	chr9	37002644	-	ENST00000382303	KANK1	chr9	730049	+	2835	604	0	1964	654

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

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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

>62952_62952_1_PAX5-KANK1_PAX5_chr9_37002644_ENST00000358127_KANK1_chr9_730049_ENST00000382303_length(amino acids)=654AA_BP=201
MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKV
ATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQPVPASSHSIVSTGSVTQVSSVSTDSAGSSYS
ISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEGTLSPVNLTDDQIAAGLYACT
NNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSDESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAEGHHAVNIEGL
KSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFCLNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISP
DVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDMRIVEELFGCGDVNAKASQAGQTAL
MLAVSHGRIDMVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTALSIALEAGHKDIAVLLYAHVNFAK

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

>62952_62952_2_PAX5-KANK1_PAX5_chr9_37002644_ENST00000377847_KANK1_chr9_730049_ENST00000382303_length(amino acids)=654AA_BP=201
MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKV
ATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQPVPASSHSIVSTGSVTQVSSVSTDSAGSSYS
ISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEGTLSPVNLTDDQIAAGLYACT
NNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSDESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAEGHHAVNIEGL
KSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFCLNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISP
DVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDMRIVEELFGCGDVNAKASQAGQTAL
MLAVSHGRIDMVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTALSIALEAGHKDIAVLLYAHVNFAK

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

>62952_62952_3_PAX5-KANK1_PAX5_chr9_37002644_ENST00000377852_KANK1_chr9_730049_ENST00000382303_length(amino acids)=654AA_BP=201
MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKV
ATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQPVPASSHSIVSTGSVTQVSSVSTDSAGSSYS
ISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEGTLSPVNLTDDQIAAGLYACT
NNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSDESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAEGHHAVNIEGL
KSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFCLNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISP
DVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDMRIVEELFGCGDVNAKASQAGQTAL
MLAVSHGRIDMVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTALSIALEAGHKDIAVLLYAHVNFAK

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

>62952_62952_4_PAX5-KANK1_PAX5_chr9_37002644_ENST00000377853_KANK1_chr9_730049_ENST00000382303_length(amino acids)=654AA_BP=201
MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKV
ATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQPVPASSHSIVSTGSVTQVSSVSTDSAGSSYS
ISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEGTLSPVNLTDDQIAAGLYACT
NNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSDESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAEGHHAVNIEGL
KSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFCLNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISP
DVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDMRIVEELFGCGDVNAKASQAGQTAL
MLAVSHGRIDMVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTALSIALEAGHKDIAVLLYAHVNFAK

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

>62952_62952_5_PAX5-KANK1_PAX5_chr9_37002644_ENST00000446742_KANK1_chr9_730049_ENST00000382303_length(amino acids)=588AA_BP=135
MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRIIRTKVQQPPNQPVPASSH
SIVSTGSVTQVSSVSTDSAGSSYSISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFP
TQEGTLSPVNLTDDQIAAGLYACTNNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSDESSSSESDDECDVIEYPLEE
EEEEEDEDTRGMAEGHHAVNIEGLKSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFCLNTLQHEWFR
VSSQKSAIPAMVGDYIAAFEAISPDVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDM
RIVEELFGCGDVNAKASQAGQTALMLAVSHGRIDMVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTA

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

>62952_62952_6_PAX5-KANK1_PAX5_chr9_37002644_ENST00000520154_KANK1_chr9_730049_ENST00000382303_length(amino acids)=654AA_BP=201
MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKV
ATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQPVPASSHSIVSTGSVTQVSSVSTDSAGSSYS
ISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEGTLSPVNLTDDQIAAGLYACT
NNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSDESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAEGHHAVNIEGL
KSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFCLNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISP
DVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDMRIVEELFGCGDVNAKASQAGQTAL
MLAVSHGRIDMVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTALSIALEAGHKDIAVLLYAHVNFAK

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

>62952_62952_7_PAX5-KANK1_PAX5_chr9_37002644_ENST00000523241_KANK1_chr9_730049_ENST00000382303_length(amino acids)=654AA_BP=201
MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKV
ATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQPVPASSHSIVSTGSVTQVSSVSTDSAGSSYS
ISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEGTLSPVNLTDDQIAAGLYACT
NNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSDESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAEGHHAVNIEGL
KSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFCLNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISP
DVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDMRIVEELFGCGDVNAKASQAGQTAL
MLAVSHGRIDMVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTALSIALEAGHKDIAVLLYAHVNFAK

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

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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/chr9:/chr9:)
- 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
PAX5 Q02548	KANK1 Q14678
FUNCTION: Transcription factor that plays an essential role in commitment of lymphoid progenitors to the B-lymphocyte lineage (PubMed:10811620, PubMed:27181361). Fulfills a dual role by repressing B-lineage inappropriate genes and simultaneously activating B-lineage-specific genes (PubMed:10811620, PubMed:27181361). In turn, regulates cell adhesion and migration, induces V(H)-to-D(H)J(H) recombination, facilitates pre-B-cell receptor signaling and promotes development to the mature B-cell stage (PubMed:32612238). Repression of the cohesin-release factor WAPL causes global changes of the chromosomal architecture in pro-B cells to facilitate the generation of a diverse antibody repertoire (PubMed:32612238). {ECO:0000269\|PubMed:10811620, ECO:0000269\|PubMed:27181361, ECO:0000269\|PubMed:32612238}.; FUNCTION: (Microbial infection) Plays an essential role in the maintenance of Epstein-Barr virus genome copy number within the host cell by promoting EBNA1/oriP-dependent binding and transcription (PubMed:31941781). Participates also in the inhibition of lytic EBV reactivation by modulating viral BZLF1 activity (PubMed:23678172). {ECO:0000269\|PubMed:23678172, ECO:0000269\|PubMed:31941781}.	FUNCTION: Involved in the control of cytoskeleton formation by regulating actin polymerization. Inhibits actin fiber formation and cell migration (PubMed:25961457). Inhibits RhoA activity; the function involves phosphorylation through PI3K/Akt signaling and may depend on the competetive interaction with 14-3-3 adapter proteins to sequester them from active complexes (PubMed:25961457). Inhibits the formation of lamellipodia but not of filopodia; the function may depend on the competetive interaction with BAIAP2 to block its association with activated RAC1 (PubMed:25961457). Inhibits fibronectin-mediated cell spreading; the function is partially mediated by BAIAP2. Inhibits neurite outgrowth. Involved in the establishment and persistence of cell polarity during directed cell movement in wound healing. In the nucleus, is involved in beta-catenin-dependent activation of transcription. Potential tumor suppressor for renal cell carcinoma. Regulates Rac signaling pathways (PubMed:25961457). {ECO:0000269\|PubMed:16968744, ECO:0000269\|PubMed:18458160, ECO:0000269\|PubMed:19171758, ECO:0000269\|PubMed:22084092, ECO:0000269\|PubMed:25961457}.

Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at
download page
* Minus value of BPloci means that the break pointn is located before the CDS.

- Retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

- Not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

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Fusion Protein Structures

PDB and CIF files of the predicted fusion proteins
* Here we show the 3D structure of the fusion proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.

Fusion protein PDB link (fusion AA seq ID in FusionPDB)	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	AA seq	Len(AA seq)

PDB file (452) >>>452.pdbFusion protein BP residue: 135 CIF file (452) >>>452.cif	PAX5	chr9	37002644	-	KANK1	chr9	730049	+	MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVR PCDISRQLRVSHGCVSKILGRIIRTKVQQPPNQPVPASSHSIVSTGSVTQ VSSVSTDSAGSSYSISGILGITSPSADTNKRKRDEGNYLGYTCKCGGLQS GSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEGTLSPVNLTDDQIAAGL YACTNNESTLKSIMKKKDGNKDSNGAKKNLQFVGINGGYETTSSDDSSSD ESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAEGHHAVNIEGLKSARVE DEMQVQECEPEKVEIRERYELSEKMLSACNLLKNTINDPKALTSKDMRFC LNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISPDVLRYVINLADGNGNT ALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYTPIMLAALAAVEAEKDM RIVEELFGCGDVNAKASQAGQTALMLAVSHGRIDMVKGLLACGADVNIQD DEGSTALMCASEHGHVEIVKLLLAQPGCNGHLEDNDGSTALSIALEAGHK	588
3D view using mol* of 452 (AA BP:135)


PDB file (531) >>>531.pdbFusion protein BP residue: 201 CIF file (531) >>>531.cif	PAX5	chr9	37002644	-	KANK1	chr9	730049	+	MDLEKNYPTPRTSRTGHGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVR PCDISRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKVATPKVVEKIA EYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQQPPNQP VPASSHSIVSTGSVTQVSSVSTDSAGSSYSISGILGITSPSADTNKRKRD EGNYLGYTCKCGGLQSGSPLSSQTSQPEQEVGTSEGKPISSLDAFPTQEG TLSPVNLTDDQIAAGLYACTNNESTLKSIMKKKDGNKDSNGAKKNLQFVG INGGYETTSSDDSSSDESSSSESDDECDVIEYPLEEEEEEEDEDTRGMAE GHHAVNIEGLKSARVEDEMQVQECEPEKVEIRERYELSEKMLSACNLLKN TINDPKALTSKDMRFCLNTLQHEWFRVSSQKSAIPAMVGDYIAAFEAISP DVLRYVINLADGNGNTALHYSVSHSNFEIVKLLLDADVCNVDHQNKAGYT PIMLAALAAVEAEKDMRIVEELFGCGDVNAKASQAGQTALMLAVSHGRID MVKGLLACGADVNIQDDEGSTALMCASEHGHVEIVKLLLAQPGCNGHLED NDGSTALSIALEAGHKDIAVLLYAHVNFAKAQSPGTPRLGRKTSPGPTHR	654
3D view using mol* of 531 (AA BP:201)

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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.

PAX5_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.

PAX5_KANK1_452_pLDDT.png (AA BP:135)

PAX5_KANK1_452_pLDDT_and_active_sites.png (AA BP:135)

PAX5_KANK1_452_violinplot.png (AA BP:135)

PAX5_KANK1_531_pLDDT.png (AA BP:201)

PAX5_KANK1_531_pLDDT_and_active_sites.png (AA BP:201)

PAX5_KANK1_531_violinplot.png (AA BP:201)

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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

PAX5_KANK1_452.png

PAX5_KANK1_531.png

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Potential Active Site Information

The potential binding sites of these fusion proteins were identified using SiteMap, a module of the Schrodinger suite.

Fusion AA seq ID in FusionPDB	Site score	Size	D score	Volume	Exposure	Enclosure	Contact	Phobic	Philic	Balance	Don/Acc	Residues
452	0.9904	159	1.0123	444.185	0.6311	0.6805	0.8561	0.4701	1.0306	0.4562	0.5387	Chain A: 16,18,19,20,25,26,27,28,29,30,42,45,46,50 ,51,52,56,61,62,63,64,66,67,69,70,71,72,73,74,76,3 88,392,417,418,419,421,422,423,424,425,426,455,459 ,460,461
531	1.011	374	1.043	1054.039	0.564	0.689	0.867	0.524	0.951	0.551	0.895	Chain A: 258,259,260,262,263,264,266,267,269,271,2 72,274,275,276,277,279,298,299,300,301,302,402,408 ,409,414,417,418,421,422,425,426,429,430,431,432,4 51,454,455,458,459,460,461,462,463,464,470,473,474 ,475,476,477,478,479,488,490,492,493,494,495,496,5 07,508,509,510,511,512,514,515,518,548

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Potentially Interacting Small Molecules through Virtual Screening

The FDA-approved small molecule library molecules were subjected to virtual screening using the Glide.

Fusion AA seq ID in FusionPDB

ZINC ID

DrugBank ID

Drug name

Docking score

Glide gscore

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Drug information from DrugBank of the top 20 interacting small molecules.

ZINC ID

DrugBank ID

Drug name

Drug type

SMILES

Drug group

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Biochemical Features of Small Molecules

ADME (Absorption, Distribution, Metabolism, and Excretion) of drugs using QikProp(v3.9)

ZINC ID

mol_MW

dipole

SASA

FOSA

FISA

PISA

WPSA

volume

donorHB

accptHB

Human Oral Absorption

Percent Human Oral Absorption

Rule Of Five

Rule Of Three

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Drug Toxicity Information

Toxicity information of individual drugs using eToxPred

ZINC ID

Smile

Surface Accessibility

Toxicity

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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
PAX5	TLE4, DAXX, RUNX1, MYB, ID3, EP300, TBP, RB1, MAPK1, KAT2B, CDKN1B, UBE3A, RAD52, HMGB3, HOXC8, MAPK9, NFYC, FBLN1, GRHL2, DTX2, CSNK2A1, UBE2I, CCNC, BCAS2, C1orf109, GNG13, ZMYM5, SEC14L4, RNF144B, OSGIN1, CIB3, SAE1, STAC, TLK2, HMBOX1, NGLY1, NEIL2, LONRF1, LDLRAP1, LARP4, UBXN7, ACOT12, CKS1B, KLHL38, HGS, CXorf38, KRTAP10-8, PNMA5, KRTAP9-3, UBXN2B, CDK3, BKRF1, HIST1H3A, PAX8, KLHL14,

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
PAX5
KANK1

- 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 PAX5-KANK1

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 PAX5-KANK1

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
Hgene	PAX5	C0006413	Burkitt Lymphoma	4	ORPHANET
Hgene	PAX5	C1292769	Precursor B-cell lymphoblastic leukemia	4	ORPHANET
Hgene	PAX5	C0023485	Precursor B-Cell Lymphoblastic Leukemia-Lymphoma	2	CTD_human
Hgene	PAX5	C1961102	Precursor Cell Lymphoblastic Leukemia Lymphoma	2	CGI;CTD_human;UNIPROT
Hgene	PAX5	C0023452	Childhood Acute Lymphoblastic Leukemia	1	CTD_human
Hgene	PAX5	C0023453	L2 Acute Lymphoblastic Leukemia	1	CTD_human
Hgene	PAX5	C1535926	Neurodevelopmental Disorders	1	CTD_human
Tgene	KANK1	C0001973	Alcoholic Intoxication, Chronic	1	PSYGENET
Tgene	KANK1	C0008370	Cholestasis	1	CTD_human
Tgene	KANK1	C0023893	Liver Cirrhosis, Experimental	1	CTD_human
Tgene	KANK1	C0027726	Nephrotic Syndrome	1	GENOMICS_ENGLAND
Tgene	KANK1	C2751938	Cerebral Palsy, Spastic Quadriplegic, 1	1	ORPHANET
Tgene	KANK1	C2752061	Cerebral Palsy, Spastic Quadriplegic, 2	1	CTD_human;GENOMICS_ENGLAND