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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 20042

FusionGeneSummary for LPP_RNF168

check button Fusion gene summary
Fusion gene informationFusion gene name: LPP_RNF168
Fusion gene ID: 20042
HgeneTgene
Gene symbol

LPP

RNF168

Gene ID

4026

165918

Gene nameLIM domain containing preferred translocation partner in lipomaring finger protein 168
Synonyms-hRNF168
Cytomap

3q27.3-q28

3q29

Type of geneprotein-codingprotein-coding
Descriptionlipoma-preferred partnerLIM proteinlipoma preferred partnerE3 ubiquitin-protein ligase RNF168RING-type E3 ubiquitin transferase RNF168ring finger protein 168, E3 ubiquitin protein ligase
Modification date2018051920180519
UniProtAcc

Q93052

Q8IYW5

Ensembl transtripts involved in fusion geneENST00000448637, ENST00000312675, 
ENST00000543006, ENST00000471917, 
ENST00000318037, 
Fusion gene scores* DoF score29 X 22 X 11=70182 X 2 X 2=8
# samples 372
** MAII scorelog2(37/7018*10)=-4.24546277188585
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/8*10)=1.32192809488736
Context

PubMed: LPP [Title/Abstract] AND RNF168 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationDDR (DNA damage repair) gene involved fusion gene, retained protein feature but frameshift.
* 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
TgeneRNF168

GO:0006302

double-strand break repair

19203578|19203579|22980979

TgeneRNF168

GO:0006511

ubiquitin-dependent protein catabolic process

22373579

TgeneRNF168

GO:0006974

cellular response to DNA damage stimulus

19500350|20550933|22373579|22508508|22980979

TgeneRNF168

GO:0010212

response to ionizing radiation

19203578|19203579

TgeneRNF168

GO:0016567

protein ubiquitination

22373579

TgeneRNF168

GO:0035518

histone H2A monoubiquitination

22980979

TgeneRNF168

GO:0036351

histone H2A-K13 ubiquitination

22980979

TgeneRNF168

GO:0036352

histone H2A-K15 ubiquitination

22980979

TgeneRNF168

GO:0045739

positive regulation of DNA repair

19203578|19203579

TgeneRNF168

GO:0070534

protein K63-linked ubiquitination

22266820

TgeneRNF168

GO:0070535

histone H2A K63-linked ubiquitination

19203578|19203579|19500350


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGALDBLCATCGA-FD-A6TG-01ALPPchr3

188327632

+RNF168chr3

196202183

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
Frame-shitENST00000448637ENST00000318037LPPchr3

188327632

+RNF168chr3

196202183

-
Frame-shitENST00000312675ENST00000318037LPPchr3

188327632

+RNF168chr3

196202183

-
Frame-shitENST00000543006ENST00000318037LPPchr3

188327632

+RNF168chr3

196202183

-
3UTR-3CDSENST00000471917ENST00000318037LPPchr3

188327632

+RNF168chr3

196202183

-

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FusionProtFeatures for LPP_RNF168


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

Q93052

RNF168

Q8IYW5

May play a structural role at sites of cell adhesion inmaintaining cell shape and motility. In addition to thesestructural functions, it may also be implicated in signalingevents and activation of gene transcription. May be involved insignal transduction from cell adhesion sites to the nucleusallowing successful integration of signals arising from solublefactors and cell-cell adhesion sites. Also suggested to serve as ascaffold protein upon which distinct protein complexes areassembled in the cytoplasm and in the nucleus.{ECO:0000269|PubMed:10637295, ECO:0000269|Ref.2}. E3 ubiquitin-protein ligase required for accumulation ofrepair proteins to sites of DNA damage. Acts with UBE2N/UBC13 toamplify the RNF8-dependent histone ubiquitination. Recruited tosites of DNA damage at double-strand breaks (DSBs) by binding toubiquitinated histone H2A and H2AX and amplifies the RNF8-dependent H2A ubiquitination, promoting the formation of 'Lys-63'-linked ubiquitin conjugates. This leads to concentrateubiquitinated histones H2A and H2AX at DNA lesions to thethreshold required for recruitment of TP53BP1 and BRCA1. Alsorecruited at DNA interstrand cross-links (ICLs) sites and promotesaccumulation of 'Lys-63'-linked ubiquitination of histones H2A andH2AX, leading to recruitment of FAAP20/C1orf86 and Fanconi anemia(FA) complex, followed by interstrand cross-link repair. H2Aubiquitination also mediates the ATM-dependent transcriptionalsilencing at regions flanking DSBs in cis, a mechanism to avoidcollision between transcription and repair intermediates. Alsoinvolved in class switch recombination in immune system, via itsrole in regulation of DSBs repair. Following DNA damage, promotesthe ubiquitination and degradation of JMJD2A/KDM4A incollaboration with RNF8, leading to unmask H4K20me2 mark andpromote the recruitment of TP53BP1 at DNA damage sites. Not ableto initiate 'Lys-63'-linked ubiquitination in vitro; possibly dueto partial occlusion of the UBE2N/UBC13-binding region. Catalyzesmonoubiquitination of 'Lys-13' and 'Lys-15' of nucleosomal histoneH2A (H2AK13Ub and H2AK15Ub, respectively). {ECO:0000255|HAMAP-Rule:MF_03066, ECO:0000269|PubMed:19203578,ECO:0000269|PubMed:19203579, ECO:0000269|PubMed:20550933,ECO:0000269|PubMed:22373579, ECO:0000269|PubMed:22705371,ECO:0000269|PubMed:22713238, ECO:0000269|PubMed:22742833,ECO:0000269|PubMed:22980979, ECO:0000269|PubMed:23760478}.

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.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for LPP_RNF168


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for LPP_RNF168


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 (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors
LPPATP5J2, PPP2R1A, ELAVL1, EGLN2, VHL, CLNS1A, PNPO, HNRNPL, CPT1A, HSPA5, AGFG1, ALAD, ARPC3, ARPC4, CALR, DBNL, HSPBP1, IPO11, P3H1, DPP9, EFTUD1, FEN1, FKBP10, RPRD1B, SAE1, SURF2, UFM1, NIF3L1, NPLOC4, OGT, PPME1, PPP2R5D, RANGAP1, RDX, SH3GLB1, TPRKB, UBE3A, ZPR1, SUZ12, RNF2, COPS5, GMPPA, PICALM, NINL, XPO1, CDH1, PTPN21, PPP2R3A, WDYHV1, SERPINB2, PDLIM7, LPXN, CBLC, MRPL38, WASF3, MTNR1A, G3BP1, TESRNF168UBE2G2, HIST2H2AC, TP53BP1, H2AFX, UBE2N, HIST2H2AA3, HIST2H2BE, HERC2, KDM4A, UBC, KIAA0368, UBE2D3, UBE2E1, DDX1, POC1A, TAF15, EWSR1, DCTN1, KIF5B, SMARCA5, UBR5, TRIP12, LAPTM5, RNF11, KDM1A, JMJD1C, BCL10, RNF168, PSMD11, TBP, SRCAP, CCDC174, NUB1, RPRD1B, TACC3, FAM45A, USP7, SUMO2, SUMO3, HIST1H1C, UBE2D1, H2AFZ, HIST1H2AB, FOXM1, WBP2, PALB2, BRCA2, TOP2A, MKI67, SUMO1, UBB, TJP1, PCM1, PDCD11, NCL, HNRNPM, DDX21, RAI14, LIMA1, DHX9, DHX15, DBN1, PABPC4, USP10


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for LPP_RNF168


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for LPP_RNF168


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneLPPC3495559Juvenile arthritis1CTD_human