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Center for Computational Systems Medicine
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Kinase Fusion Gene Summary

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Kinase Fusion Gene Sample Information

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Kinase Fusion ORF Analysis

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Kinase Fusion Amino Acid Sequences

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Multiple Sequence Alignment of All Fusion Protein Isoforms

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Kinase Fusion Protein Functional Features

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Kinase Fusion Protein Structures

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Comparison of Fusion Protein Isoforms

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Comparison of Fusion Protein Sequences/Structures with Known Sequences/Structures from PDB

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pLDDT Scores and Difference Analysis of pLDDT Scores Between the Active Sites (Best) and Non-Active Sites.

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Ramachandran Plot of Kinase Fusion Protein Structure

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Potential Active Site Information

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Virtual Screening Results

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Kinase-Substrate Information

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Related Drugs with This Kinase Fusion Protein

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Related Disease with This Kinase Fusion Protein

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Clinical Trials of the Found Drugs/Small Molecules

Kinase Fusion Gene:LRRK1_GSTA4

Kinase Fusion Protein Summary

check button Kinase Fusion gene summary
Kinase Fusion partner gene informationKinase Fusion gene name: LRRK1_GSTA4
KinaseFusionDB ID: KFG3215
FusionGDB2.0 ID: KFG3215
HgeneTgene
Gene symbol

LRRK1

GSTA4

Gene ID

79705

2941

Gene nameleucine rich repeat kinase 1glutathione S-transferase alpha 4
SynonymsOSMD|RIPK6|Roco1GSTA4-4|GTA4
Cytomap

15q26.3

6p12.2

Type of geneprotein-codingprotein-coding
Descriptionleucine-rich repeat serine/threonine-protein kinase 1glutathione S-transferase A4GST class-alpha member 4S-(hydroxyalkyl)glutathione lyase A4glutathione S-alkyltransferase A4glutathione S-aralkyltransferase A4glutathione S-aryltransferase A4glutathione S-transferase A4-4glutathione transferase A4-4
Modification date2024030520240403
UniProtAcc

Q38SD2

O15217

Ensembl transtripts involved in fusion geneENST idsENST00000284395, ENST00000388948, 
ENST00000532029, ENST00000532145, 
ENST00000486559, ENST00000541324, 
ENST00000370959, ENST00000370960, 
Context (manual curation of fusion genes in KinaseFusionDB)

PubMed: LRRK1 [Title/Abstract] AND GSTA4 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)LRRK1(101555538)-GSTA4(52850334), # samples:1
check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneGSTA4

GO:0006749

glutathione metabolic process

10329152

TgeneGSTA4

GO:0006805

xenobiotic metabolic process

10329152


check buttonKinase Fusion gene breakpoints across LRRK1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonKinase Fusion gene breakpoints across GSTA4 (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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Kinase Fusion Gene Sample Information

check buttonKinase Fusion gene information.
check button Kinase Fusion gene information from four resources (ChiTars 5.0, ChimerDB 4.0, COSMIC, and CCLE)
* 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.
SourceSampleHgeneHchrHbpTgeneTchrTbp
ChiTaRS5.0BX477527LRRK1chr15

101555538

GSTA4chr6

52850334



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Kinase Fusion ORF Analysis


check buttonKinase Fusion information from ORFfinder translation from full-length transcript sequence from KinaseFusionDB.
HenstTenstHgeneHchrHbpTgeneTchrTbpSeq length
(transcript)		Seq length
(amino acids)

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Kinase Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from KinaseFusionDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>Henst_Tenst_Hgene_Hchr_Hbp_Tgene_Tchr_Tbp_length(fusion AA)_AAseq

Multiple Sequence Alignment of All Fusion Protein Isoforms



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Kinase 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/:101555538/:52850334)
- 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
LRRK1

Q38SD2

GSTA4

O15217

FUNCTION: Plays a role in the negative regulation of bone mass, acting through the maturation of osteoclasts. {ECO:0000250|UniProtKB:Q3UHC2}.FUNCTION: Conjugation of reduced glutathione to a wide number of exogenous and endogenous hydrophobic electrophiles. This isozyme has a high catalytic efficiency with 4-hydroxyalkenals such as 4-hydroxynonenal (4-HNE). {ECO:0000269|PubMed:10329152, ECO:0000269|PubMed:20085333}.

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.

check button - Retained domain in the 5'-partner of fusion protein (protein functional feature from UniProt).
PartnerHgeneeneHbpTgeneeneTbpENSTBPexonTotalExonProtein feature lociBPlociTotalLenFeatureNote


check button - Retained domain in the 3'-partner of fusion protein (protein functional feature from UniProt).
PartnerHgeneeneHbpTgeneeneTbpENSTBPexonTotalExonProtein feature lociBPlociTotalLenFeatureNote


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Kinase-Substrate Information of LRRK1_GSTA4


check button Phosphorylation target of the kinase
(phosphosite, 03-17-2024)
KinaseKinase UniProt AccKinase speciesSubstrateSubstrate UniProt AccSubstrate phosphorylated residuesSubstrate phosphorylated sites (+/-7AA)Domain
LRRK1Q38SD2humanNDEL1Q9GZM8S155ERNAFLEsELDEKEsNUDE_C
LRRK1Q38SD2humanCLIP1P30622-2T36VVAPVEKtISSEKAS
LRRK1Q38SD2humanCLIP1P30622-2S1225ASAKSLHsVVQTLES
LRRK1Q38SD2humanCLIP1P30622-2T191PISNLTKtASEsISN
LRRK1Q38SD2humanRAB7AP51149S72AGQERFQsLGVAFYRRas
LRRK1Q38SD2humanCLIP1P30622-2T13PSGLKAPtKILKPGS
LRRK1Q38SD2humanNDEL1Q9GZM8S166EKEsLLVsVQRLKDENUDE_C
LRRK1Q38SD2humanCLIP1P30622-2S1318DDLNNYDsDDQEKQS
LRRK1Q38SD2humanCLIP1P30622-2T1384EMFGHWAtNCNDDETCLIP1_ZNF
LRRK1Q38SD2humanCLIP1P30622-2T1099NKSKELLtVENQKME
LRRK1Q38SD2humanNDEL1Q9GZM8S213MDsAVQAsLsLPAtPNUDE_C
LRRK1Q38SD2humanCLIP1P30622-2T459KGDLEVAtVSEkSRI
LRRK1Q38SD2humanNDEL1Q9GZM8S162sELDEKEsLLVsVQRNUDE_C
LRRK1Q38SD2humanNDEL1Q9GZM8T132LERAKRAtIVsLEDF
LRRK1Q38SD2humanCLIP1P30622-2S1190ASLQKsIsITSALLT
LRRK1Q38SD2humanCDK5RAP2Q96SN8T102PTEHIYKtNIELKVECnn_1N
LRRK1Q38SD2humanCDK5RAP2Q96SN8S140SLAEAGGsEIQRVKE
LRRK1Q38SD2humanCLIP1P30622-2S1188EKASLQKsIsITSAL
LRRK1Q38SD2humanCLIP1P30622-2T27STALKTPtAVVAPVE
LRRK1Q38SD2humanNDEL1Q9GZM8S95AQSYKQVsVLEDDLS


check button Biological Network Integration of This Kinase and Substrates
(GeneMANIA website)

check button Enriched GO biological processes of the phosphorylation target genes of the kinase
KinaseGOIDGO termP.adjust
LRRK1IDDescription0.00e+00
LRRK1GO:0046785microtubule polymerization1.14e-04
LRRK1GO:0031109microtubule polymerization or depolymerization1.67e-04
LRRK1GO:0051258protein polymerization8.44e-04
LRRK1GO:0031116positive regulation of microtubule polymerization8.44e-04
LRRK1GO:0000132establishment of mitotic spindle orientation8.44e-04
LRRK1GO:0031112positive regulation of microtubule polymerization or depolymerization8.44e-04
LRRK1GO:0040001establishment of mitotic spindle localization8.64e-04
LRRK1GO:0051294establishment of spindle orientation8.64e-04
LRRK1GO:0051293establishment of spindle localization1.26e-03
LRRK1GO:0051656establishment of organelle localization1.26e-03
LRRK1GO:0031113regulation of microtubule polymerization1.26e-03
LRRK1GO:0051653spindle localization1.26e-03
LRRK1GO:0032273positive regulation of protein polymerization2.52e-03
LRRK1GO:0031110regulation of microtubule polymerization or depolymerization2.55e-03
LRRK1GO:0001578microtubule bundle formation4.13e-03
LRRK1GO:0007098centrosome cycle4.71e-03
LRRK1GO:0031023microtubule organizing center organization5.26e-03
LRRK1GO:0030010establishment of cell polarity5.26e-03
LRRK1GO:0070507regulation of microtubule cytoskeleton organization5.26e-03
LRRK1GO:1902850microtubule cytoskeleton organization involved in mitosis5.26e-03
LRRK1GO:1902905positive regulation of supramolecular fiber organization5.77e-03
LRRK1GO:0051495positive regulation of cytoskeleton organization6.09e-03
LRRK1GO:0031334positive regulation of protein-containing complex assembly6.46e-03
LRRK1GO:0051650establishment of vesicle localization6.46e-03
LRRK1GO:0032271regulation of protein polymerization6.58e-03
LRRK1GO:0051648vesicle localization7.09e-03
LRRK1GO:0007163establishment or maintenance of cell polarity7.60e-03
LRRK1GO:0032886regulation of microtubule-based process9.37e-03
LRRK1GO:0140014mitotic nuclear division1.02e-02
LRRK1GO:0060052neurofilament cytoskeleton organization1.66e-02
LRRK1GO:0010639negative regulation of organelle organization1.66e-02
LRRK1GO:1902903regulation of supramolecular fiber organization1.77e-02
LRRK1GO:0010826negative regulation of centrosome duplication1.77e-02
LRRK1GO:0046606negative regulation of centrosome cycle1.77e-02
LRRK1GO:0043254regulation of protein-containing complex assembly1.77e-02
LRRK1GO:0007059chromosome segregation1.77e-02
LRRK1GO:0001833inner cell mass cell proliferation1.77e-02
LRRK1GO:0007100mitotic centrosome separation1.77e-02
LRRK1GO:0090385phagosome-lysosome fusion1.77e-02
LRRK1GO:0000280nuclear division1.77e-02
LRRK1GO:0051299centrosome separation1.77e-02
LRRK1GO:1900029positive regulation of ruffle assembly1.77e-02
LRRK1GO:1903543positive regulation of exosomal secretion1.77e-02
LRRK1GO:0099638endosome to plasma membrane protein transport1.91e-02
LRRK1GO:1903541regulation of exosomal secretion1.91e-02
LRRK1GO:0048285organelle fission2.01e-02
LRRK1GO:0001845phagolysosome assembly2.04e-02
LRRK1GO:1990182exosomal secretion2.04e-02
LRRK1GO:0090231regulation of spindle checkpoint2.04e-02

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Related Drugs to LRRK1_GSTA4


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

check button Distribution of the number of studies mentioning LRRK1-GSTA4 and kinase inhibitors the PubMed Abstract (04-01-2024)

Fusion gene - drug pair 1Fusion gene - drug pair 2PMIDPublication dateDOIStudy title

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Related Diseases to LRRK1_GSTA4


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

check button Related diseases from the literature mentioned this fusion gene and drug.
(PubMed, 04-01-2024)
MeSH IDMeSH term

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource


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Clinical Trials of the Found Drugs/Small Molecules


check button Statistics of the Clinical Trials of the Found Kinase Inibitors from clinicaltrials.gov (06-17-2024)

check button Clinical Trials from clinicaltrials.gov (06-17-2024)

Fusion GeneKinase InhibitorNCT IDStudy StatusPhasesDisease# EnrolmentDate