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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:PAK1_CWF19L2

Kinase Fusion Protein Summary

check button Kinase Fusion gene summary
Kinase Fusion partner gene informationKinase Fusion gene name: PAK1_CWF19L2
KinaseFusionDB ID: KFG4406
FusionGDB2.0 ID: KFG4406
HgeneTgene
Gene symbol

PAK1

CWF19L2

Gene ID

5585

143884

Gene nameprotein kinase N1CWF19 like cell cycle control factor 2
SynonymsDBK|PAK-1|PAK1|PKN|PKN-ALPHA|PRK1|PRKCL1-
Cytomap

19p13.12

11q22.3

Type of geneprotein-codingprotein-coding
Descriptionserine/threonine-protein kinase N1protease-activated kinase 1protein kinase C-like 1protein kinase C-like PKNprotein kinase C-related kinase 1protein kinase PKN-alphaserine-threonine kinase Nserine/threonine protein kinase NCWF19-like protein 2CWF19 like 2, cell cycle control
Modification date2024030520240305
UniProtAcc

Q16512

Q2TBE0

Ensembl transtripts involved in fusion geneENST idsENST00000278568, ENST00000356341, 
ENST00000525542, ENST00000528203, 
ENST00000530617, 		ENST00000282251, 
ENST00000433523, 
Context (manual curation of fusion genes in KinaseFusionDB)

PubMed: PAK1 [Title/Abstract] AND CWF19L2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)PAK1(77184597)-CWF19L2(107326502), # samples:3
check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgenePAK1

GO:0006357

regulation of transcription by RNA polymerase II

12514133

HgenePAK1

GO:0006468

protein phosphorylation

17332740

HgenePAK1

GO:0043687

post-translational protein modification

18066052


check buttonKinase Fusion gene breakpoints across PAK1 (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 CWF19L2 (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
ChimerDB4TCGA-XX-A899-01APAK1chr11

77184597

CWF19L2chr11

107326502

ChimerDB4TCGA-XX-A899PAK1chr11

77184596

CWF19L2chr11

107326502



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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/:77184597/:107326502)
- 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
PAK1

Q16512

CWF19L2

Q2TBE0

FUNCTION: PKC-related serine/threonine-protein kinase involved in various processes such as regulation of the intermediate filaments of the actin cytoskeleton, cell migration, tumor cell invasion and transcription regulation. Part of a signaling cascade that begins with the activation of the adrenergic receptor ADRA1B and leads to the activation of MAPK14. Regulates the cytoskeletal network by phosphorylating proteins such as VIM and neurofilament proteins NEFH, NEFL and NEFM, leading to inhibit their polymerization. Phosphorylates 'Ser-575', 'Ser-637' and 'Ser-669' of MAPT/Tau, lowering its ability to bind to microtubules, resulting in disruption of tubulin assembly. Acts as a key coactivator of androgen receptor (AR)-dependent transcription, by being recruited to AR target genes and specifically mediating phosphorylation of 'Thr-11' of histone H3 (H3T11ph), a specific tag for epigenetic transcriptional activation that promotes demethylation of histone H3 'Lys-9' (H3K9me) by KDM4C/JMJD2C. Phosphorylates HDAC5, HDAC7 and HDAC9, leading to impair their import in the nucleus. Phosphorylates 'Thr-38' of PPP1R14A, 'Ser-159', 'Ser-163' and 'Ser-170' of MARCKS, and GFAP. Able to phosphorylate RPS6 in vitro. {ECO:0000269|PubMed:11104762, ECO:0000269|PubMed:12514133, ECO:0000269|PubMed:17332740, ECO:0000269|PubMed:18066052, ECO:0000269|PubMed:20188095, ECO:0000269|PubMed:21224381, ECO:0000269|PubMed:21754995, ECO:0000269|PubMed:24248594, ECO:0000269|PubMed:8557118, ECO:0000269|PubMed:8621664, ECO:0000269|PubMed:9175763}.

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 PAK1_CWF19L2


check button Phosphorylation target of the kinase
(phosphosite, 03-17-2024)
KinaseKinase UniProt AccKinase speciesSubstrateSubstrate UniProt AccSubstrate phosphorylated residuesSubstrate phosphorylated sites (+/-7AA)Domain
PAK1Q13153humanFXR1P51114S420sERkDELsDWsLAGEFXMRP1_C_core
PAK1Q13153humanARPC1BO15143T21HAWNkDRtQIAICPN
PAK1Q13153humanGNAZP19086S16EKEAARRsRRIDRHLG-alpha
PAK1Q13153humanARHGEF2Q92974S886PVDPRRRsLPAGDAL
PAK1Q13153humanMAP3K1Q13233S67RQLRKVRsVELDQLP
PAK1Q13153humanTBCBQ99426S128VRsFLKRsKLGRyNE
PAK1Q13153humanCRKP46108S41VFLVRDsstsPGDyVSH2
PAK1Q13153humanCTNNB1P35222S675QDykKRLsVELtsSL
PAK1Q13153humanGDI2P50395T248LSAIyGGtYMLNkPIGDI
PAK1Q13153humanMICAL1Q8TDZ2S817sPERQRLssLNLtPD
PAK1Q13153humanPXNP49023S258tQQQtRIsAssAtRE
PAK1Q13153humanGDI2P50395S382PIEQkFVsIsDLLVPGDI
PAK1Q13153humanTBCBQ99426S65GVDDKFYskLDQEDAUbiquitin_2
PAK1Q13153humanPXNP49023-2S272ELDELMAsLSDFKFM
PAK1Q13153humanPLK1P53350S49EVLVDPRsRRRYVRG
PAK1Q13153humanH3C1P68431S10tkQtArkstGGkAPrHistone
PAK1Q13153humanPAK1Q13153S204tKsVyTRsVIEPLPV
PAK1Q13153humanSNAI1O95863S246QACARTFsRMsLLHK
PAK1Q13153humanFLNAP21333S2292FEDRkDGsCGVAYVVFilamin
PAK1Q13153humanARHGDIAP52565S174kGMLARGsYsIkSRFRho_GDI
PAK1Q13153humanPCBP1Q15365T60NCPERIItLTGPTNAKH_1
PAK1Q13153humanCTTNQ14247S405KtQtPPVsPAPQPtE
PAK1Q13153humanDYNLL1P63167S88VAILLFKsG______Dynein_light
PAK1Q13153humanARL4AP40617S143QDLRNSLsLSEIEKLArf
PAK1Q13153humanNLRP3Q96P20S198GKTKTCEsPVSPIKMFISNA
PAK1Q13153humanARL4DP49703S144QDQPGALsAAEVEkRArf
PAK1Q13153humanSPENQ96T58T3568EGVARRMtVETDYCLSPOC
PAK1Q13153humanARHGEF2Q92974-2S885PVDPRRRsLPAGDAL
PAK1Q13153humanAURKAO14965S342QETYKRIsRVEFTFPPkinase
PAK1Q13153humanSTMN1P16949S38sVPEFPLsPPkKkDLStathmin
PAK1Q13153humanGIT1Q9Y2X7S700PALEPVRsSLRLLNAGIT1_C
PAK1Q13153humanPCBP1Q15365T127IKEIREStGAQVQVAKH_1
PAK1Q13153humanNF2P35240S518DTDMKRLsMEIEKEKERM_C
PAK1Q13153humanPA2G4Q9UQ80T261QyGLkMktSRAFFsEPeptidase_M24
PAK1Q13153humanRUNX3Q13761T209ERLRMRVtPstPsPr
PAK1Q13153humanARHGDIAP52565S101LEsFKkQsFVLkEGVRho_GDI
PAK1Q13153humanSTMN1P16949S16kELEKrAsGQAFELIStathmin
PAK1Q13153humanMAP2K1Q02750S298RtPGRPLssyGMDSRPkinase
PAK1Q13153humanBADQ92934S99PFrGrsRsAPPNLWABcl-2_BAD
PAK1Q13153humanKIF2CQ99661S111kEsLRsRstRMstVS
PAK1Q13153humanAURKAO14965T288APSsRRttLCGtLDyPkinase
PAK1Q13153humanPGM1P36871T467SANDKVYtVEkADNF
PAK1Q13153humanPAK1Q13153S199PRPEHtKsVyTRsVI
PAK1Q13153humanRAF1P04049S339PRGQRDssyyWEIEA
PAK1Q13153humanILKQ13418S246CPRLRIFsHPNVLPVPK_Tyr_Ser-Thr
PAK1Q13153humanBADQ92934S75EIRsRHssyPAGtEDBcl-2_BAD
PAK1Q13153humanKIF2CQ99661S192VNsVRRKsCLVkEVE
PAK1Q13153humanPGAM1P18669S23WNLENrFsGWyDADLHis_Phos_1
PAK1Q13153humanARHGDIAP52565S176MLARGsYsIkSRFTDRho_GDI
PAK1Q13153humanELF3P78545S207GTGASRSsHSSDsGG
PAK1Q13153humanMORC2Q9Y6X9S739AtPsRKRsVAVsDEE
PAK1Q13153humanCTTNQ14247S113skLskHCsQVDsVrGHS1_rep
PAK1Q13153humanNLRP3Q96P20T659KIEINLStRMDHMVS
PAK1Q13153humanBADQ92934S118GRELRRMsDEFVDsFBcl-2_BAD
PAK1Q13153humanGIT1Q9Y2X7S508RRDRQAFsMyEPGsA
PAK1Q13153humanITGB3BPQ13352S28SkITRKKsVITysPTCENP-R
PAK1Q13153humanBADQ92934S74VEIRsRHssyPAGtEBcl-2_BAD
PAK1Q13153humanNLRP3Q96P20S163ARLGEsVsLNKRYTRFISNA
PAK1Q13153humanMYL9P24844S20KRPQRAtsNVFAMFD
PAK1Q13153humanFLNAP21333S2152tRRRRAPsVANVGsHFilamin
PAK1Q13153humanSNAI2O43623S251KNCsKTFsRMsLLHKzf-C2H2
PAK1Q13153humanFLNAP21333S2370AIDAkVHsPsGALEEFilamin
PAK1Q13153humanBRAFP15056S446KtLGRRDssDDWEIP
PAK1Q13153humanPGAM1P18669S118QVkIWRRsyDVPPPPHis_Phos_1
PAK1Q13153humanCTNNB1P35222S552QDtQRRtsMGGtQQQ
PAK1Q13153humanSPENQ96T58S3486QPAPKQDssPHLTSQ
PAK1Q13153humanCTTNQ14247S418tEErLPssPVyEDAA
PAK1Q13153humanLIMK1P53667T508PDRKKRYtVVGNPYWPK_Tyr_Ser-Thr
PAK1Q13153humanPAK1Q13153S144sNsQKyMsFtDksAE
PAK1Q13153humanRAF1P04049S338RPRGQRDssyyWEIE
PAK1Q13153humanPREX2Q70Z35S1107DTISNRDsYSDCNSN
PAK1Q13153humanILKQ13418T173DTFWkGttRTRPRNG
PAK1Q13153humanCTBP1Q13363S158REGTRVQsVEQIREV2-Hacid_dh_C; 2-Hacid_dh
PAK1Q13153humanPAK1Q13153T423PEQSkRstMVGtPYWPkinase
PAK1Q13153humanMICAL1Q8TDZ2S960ELALRRQssSPEQQKbMERB_dom
PAK1Q13153humanHACE1Q8IYU2S385LMKNKRDsTEITsIL
PAK1Q13153humanESR1P03372S305IkRSkkNsLALSLtA
PAK1Q13153humanMYLKQ15746S1772SGLsGRKsstGsPts
PAK1Q13153humanBADQ92934S134KGLPRPKsAGtAtQMBcl-2_BAD
PAK1Q13153humanVIMP08670S56srsLyAssPGGVyAtFilament_head
PAK1Q13153humanATG5Q9H1Y0T101SALPWNItVHFKSFPAPG5


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
PAK1IDDescription0.00e+00
PAK1GO:0051017actin filament bundle assembly7.15e-06
PAK1GO:0061572actin filament bundle organization7.15e-06
PAK1GO:0032233positive regulation of actin filament bundle assembly7.15e-06
PAK1GO:0032231regulation of actin filament bundle assembly7.15e-06
PAK1GO:1902905positive regulation of supramolecular fiber organization8.29e-06
PAK1GO:0051495positive regulation of cytoskeleton organization9.71e-06
PAK1GO:0007015actin filament organization9.71e-06
PAK1GO:1902903regulation of supramolecular fiber organization1.82e-05
PAK1GO:0051492regulation of stress fiber assembly4.26e-05
PAK1GO:0051496positive regulation of stress fiber assembly4.66e-05
PAK1GO:0032956regulation of actin cytoskeleton organization4.66e-05
PAK1GO:0110020regulation of actomyosin structure organization6.18e-05
PAK1GO:0030038contractile actin filament bundle assembly6.98e-05
PAK1GO:0043149stress fiber assembly6.98e-05
PAK1GO:0007264small GTPase mediated signal transduction7.90e-05
PAK1GO:0110053regulation of actin filament organization7.90e-05
PAK1GO:0032970regulation of actin filament-based process8.07e-05
PAK1GO:0031032actomyosin structure organization1.50e-04
PAK1GO:0010720positive regulation of cell development2.67e-04
PAK1GO:0007265Ras protein signal transduction3.33e-04
PAK1GO:0031589cell-substrate adhesion4.35e-04
PAK1GO:1900026positive regulation of substrate adhesion-dependent cell spreading4.38e-04
PAK1GO:0022411cellular component disassembly5.51e-04
PAK1GO:1903034regulation of response to wounding5.70e-04
PAK1GO:0034446substrate adhesion-dependent cell spreading5.74e-04
PAK1GO:0048538thymus development6.92e-04
PAK1GO:0046578regulation of Ras protein signal transduction6.98e-04
PAK1GO:0071470cellular response to osmotic stress8.16e-04
PAK1GO:0051056regulation of small GTPase mediated signal transduction9.24e-04
PAK1GO:1900024regulation of substrate adhesion-dependent cell spreading1.44e-03
PAK1GO:0048732gland development1.44e-03
PAK1GO:0031109microtubule polymerization or depolymerization1.86e-03
PAK1GO:0007266Rho protein signal transduction2.00e-03
PAK1GO:0061311cell surface receptor signaling pathway involved in heart development2.67e-03
PAK1GO:2001234negative regulation of apoptotic signaling pathway2.67e-03
PAK1GO:0044342type B pancreatic cell proliferation3.17e-03
PAK1GO:0032886regulation of microtubule-based process3.47e-03
PAK1GO:0006970response to osmotic stress3.47e-03
PAK1GO:0039694viral RNA genome replication3.47e-03
PAK1GO:0048679regulation of axon regeneration3.47e-03
PAK1GO:0070507regulation of microtubule cytoskeleton organization3.47e-03
PAK1GO:0035023regulation of Rho protein signal transduction3.47e-03
PAK1GO:0030878thyroid gland development3.60e-03
PAK1GO:0050767regulation of neurogenesis3.60e-03
PAK1GO:0061351neural precursor cell proliferation3.66e-03
PAK1GO:0070570regulation of neuron projection regeneration3.72e-03
PAK1GO:2001233regulation of apoptotic signaling pathway3.83e-03
PAK1GO:0031110regulation of microtubule polymerization or depolymerization5.14e-03
PAK1GO:0042060wound healing5.36e-03

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Related Drugs to PAK1_CWF19L2


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 PAK1-CWF19L2 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 PAK1_CWF19L2


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