EuRBPDB

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TCGA tumor abbreviations
  • ACCAdrenocortical carcinoma
  • BLCABladder Urothelial Carcinoma
  • BRCABreast invasive carcinoma
  • CESCCervical squamous cell carcinoma and endocervical adenocarcinoma
  • CHOLCholangio carcinoma
  • COADColon adenocarcinoma
  • DLBCLymphoid Neoplasm Diffuse Large B-cell Lymphoma
  • ESCAEsophageal carcinoma
  • GBMGlioblastoma multiforme
  • HNSCHead and Neck squamous cell carcinoma
  • KICHKidney Chromophobe
  • KIRCKidney renal clear cell carcinoma
  • KIRPKidney renal papillary cell carcinoma
  • LAMLAcute Myeloid Leukemia
  • LGGBrain Lower Grade Glioma
  • LIHCLiver hepatocellular carcinoma
  • LUADLung adenocarcinoma
  • LUSCLung squamous cell carcinoma
  • MESOMesothelioma
  • OVOvarian serous cystadenocarcinoma
  • PAADPancreatic adenocarcinoma
  • PCPGPheochromocytoma and Paraganglioma
  • PRADProstate adenocarcinoma
  • READRectum adenocarcinoma
  • SARCSarcoma
  • SKCMSkin Cutaneous Melanoma
  • STADStomach adenocarcinoma
  • TGCTThyroid carcinoma
  • THCAThyroid carcinoma
  • THYMThymoma
  • UCECUterine Corpus Endometrial Carcinoma
  • UCSUterine Carcinosarcoma
  • UVMUveal Melanoma

Note: Click here to get the extension of tumor abbreviations.


  • Cancer Related Information
  • Basic Information

Cancer associated literatures
PIDTitleArticle TimeAuthorDoi
24250289Reduction of angiocidin contributes to decreased HepG2 cell proliferation.Afr Health Sci2013 SepGuan XGdoi: 10.4314/ahs.v13i3.5.
19519434The immunomodulatory role of angiocidin, a novel angiogenesis inhibitor.Curr Pharm Des2009Gaurnier-Hausser A-
16762342Integrin alpha2beta1 mediates the anti-angiogenic and anti-tumor activities of angiocidin, a novel tumor-associated protein.Exp Cell Res2006 Aug 1Sabherwal Y-
27033953Cytoplasmic localization of Nrf2 promotes colorectal cancer with more aggressive tumors via upregulation of PSMD4.Free Radic Biol Med2016 JunLin PLdoi: 10.1016/j.freeradbiomed.2016.03.014

Differential Expression

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
ACCchr1151264005Missense_MutationnovelC87R0.26
BLCAchr1151266391Missense_MutationNAE283Q0.12
BLCAchr1151265515Missense_MutationNAP187L0.46
BLCAchr1151267193SilentnovelV328V0.1
BLCAchr1151266058Missense_MutationNAR237W0.38
BLCAchr1151267342Nonstop_Mutationnovel*378Lext*110.41
BRCAchr1151263929Silentrs151089424L61L0.21
BRCAchr1151266518Splice_SitenovelX299_splice0.35
BRCAchr1151266559Nonsense_MutationNAS312*0.19
BRCAchr11512547645'UTRnovel0.26
BRCAchr1151254792Missense_MutationNAE4Q0.61
BRCAchr1151265522Silentrs768195322L189L0.06
BRCAchr1151267308Missense_Mutationrs770584632G367S0.53
BRCAchr11512547815'UTRnovel0.14
CESCchr1151262246Missense_MutationNAH38Y0.26
COADchr1151265414SilentnovelL153L0.31
COADchr11512673473'UTRnovel0.32
COADchr1151262184Missense_MutationNAR17Q0.26
COADchr11512674663'UTRnovel0.36
COADchr1151267207Missense_MutationnovelE333G0.15
COADchr1151264019Silentrs781264881R91R0.4
COADchr1151265475Missense_MutationNAP174S0.41
COADchr1151262235Missense_Mutationrs768592153N34S0.35
ESCAchr1151262201Frame_Shift_DelnovelT24Sfs*70.05
GBMchr1151262259Missense_MutationnovelR42H0.33
HNSCchr1151267173Missense_Mutationrs769270518E322K0.23
HNSCchr1151264855SilentnovelG102G0.18
HNSCchr1151262185SilentnovelR17R0.1
KIRCchr1151264009Missense_Mutationrs761401984T88M0.21
KIRPchr1151265587Missense_MutationnovelS211I0.28
LAMLchr1151265525SilentnovelA190A0.05
LGGchr1151265184Missense_Mutationrs749225884R130C0.14
LIHCchr1151265468SilentNAV171V0.34
LIHCchr1151267261Missense_MutationnovelA351G0.09
LUADchr1151262185SilentNAR17R0.45
LUADchr1151266549Missense_MutationnovelD309Y0.52
LUADchr1151265420Silentrs769012730A155A0.48
LUADchr11512674013'UTRnovel0.37
LUADchr1151265218Missense_MutationnovelI141S0.11
LUSCchr11512547795'UTRnovel0.44
LUSCchr1151265442Missense_MutationNAK163E0.23
OVchr1151266391Missense_MutationnovelE283K0.07
OVchr1151267200Missense_MutationnovelD331Y0.06
PRADchr1151262184Missense_MutationNAR17Q0.15
SARCchr1151265181Frame_Shift_DelnovelK129Nfs*80.06
SKCMchr1151266005Missense_MutationnovelA219V0.43
SKCMchr1151266006Splice_RegionnovelA219A0.43
SKCMchr1151266074Missense_MutationnovelS242F0.36
SKCMchr1151267283SilentnovelS358S0.26
SKCMchr1151267248Missense_MutationNAP347S0.97
SKCMchr1151265460Missense_MutationNAH169Y0.35
STADchr11512674573'UTRnovel0.31
STADchr1151267273Missense_MutationNAA355D0.36
UCECchr1151263933Missense_MutationnovelT63P0.11
UCECchr1151267200Missense_MutationnovelD331N0.08
UCECchr1151264017Missense_MutationnovelR91C0.3
UCECchr1151267268SilentnovelR353R0.05
UCECchr1151267284Missense_MutationnovelL359M0.34
UCECchr11512674563'UTRnovel0.46
UCECchr1151262183Missense_Mutationrs755580240R17W0.52
UCECchr1151262183Missense_Mutationrs755580240R17W0.18
UCECchr1151265544Missense_MutationNAL197M0.26
UCECchr1151267203Missense_MutationnovelP332S0.05
UCECchr1151267267Missense_MutationnovelR353Q0.42
UCECchr1151266533Silentrs750811233A303A0.4
UCECchr1151264867Missense_MutationnovelK106N0.55
UCECchr11512673443'UTRnovel0.46
UCECchr1151265454Missense_Mutationrs751785323G167S0.36
UCECchr11512673953'UTRrs7547945430.41
UCECchr1151267267Missense_MutationnovelR353Q0.34
UCECchr1151262182Missense_MutationNAM16I0.29
UCECchr1151265501SilentnovelA182A0.14
UCECchr1151265505Missense_MutationnovelI184V0.22
UCECchr1151262266Missense_MutationnovelN44K0.25
UCECchr1151266358Missense_Mutationrs181572831R272C0.24
UCECchr1151264871Missense_Mutationrs756640390R108C0.1
UCECchr1151264871Missense_Mutationrs756640390R108C0.39

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
ACCAMP0.13330.11282
CESCAMP0.48143.2002e-05
DLBCDEL0.02080.0017831
ESCAAMP0.40220.0022446
KIRCAMP0.09280.059566
LUSCAMP0.42911.6618e-06
PAADAMP0.21740.085665
PCPGAMP0.14810.00029562
READAMP0.26670.025154
SARCAMP0.34244.3422e-08
SKCMAMP0.4859.6912e-06
TGCTAMP0.340.088103

Survival Analysis
CancerP-value Q-value
KIRC0.0001

Kaplan-Meier Survival Analysis

MESO0.00026

Kaplan-Meier Survival Analysis

ACC0.00018

Kaplan-Meier Survival Analysis

KIRP0.0043

Kaplan-Meier Survival Analysis

COAD0.025

Kaplan-Meier Survival Analysis

LAML0.00012

Kaplan-Meier Survival Analysis

GBM0.038

Kaplan-Meier Survival Analysis

LIHC0.0042

Kaplan-Meier Survival Analysis

LGG0.011

Kaplan-Meier Survival Analysis

UVM0.0051

Kaplan-Meier Survival Analysis

OV0.047

Kaplan-Meier Survival Analysis

Drugs

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Eesembl ID



Cell lines and drugs in GSE70138 or GSE92742

  • Description
  • RBPome
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • PPI
  • Orthologs
  • Gene Ontology
Description
Ensembl ID
ENSG00000159352 (Gene tree)
Gene ID
5710
Gene Symbol
PSMD4
Alias
S5A|AF-1|AF|Rpn10
Full Name
proteasome 26S subunit, non-ATPase 4
Gene Type
protein_coding
Species
Homo_sapiens
Status
putative
Strand
Plus strand
Length
12,780 bases
Position
chr1:151,254,700-151,267,479
Accession
9561
RBP type
non-canonical RBP
Summary
The 26S proteasome is a multicatalytic proteinase complex with a highly ordered structure composed of 2 complexes, a 20S core and a 19S regulator. The 20S core is composed of 4 rings of 28 non-identical subunits; 2 rings are composed of 7 alpha subunits and 2 rings are composed of 7 beta subunits. The 19S regulator is composed of a base, which contains 6 ATPase subunits and 2 non-ATPase subunits, and a lid, which contains up to 10 non-ATPase subunits. Proteasomes are distributed throughout eukaryotic cells at a high concentration and cleave peptides in an ATP/ubiquitin-dependent process in a non-lysosomal pathway. An essential function of a modified proteasome, the immunoproteasome, is the processing of class I MHC peptides. This gene encodes one of the non-ATPase subunits of the 19S regulator lid. Pseudogenes have been identified on chromosomes 10 and 21. [provided by RefSeq, Jul 2008]
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
29431736Capturing the interactome of newly transcribed RNARICK & Hela2018 Feb 12Bao XDOI: 10.1038/nmeth.4595
22658674Insights into RNA biology from an atlas of mammalian mRNA-binding proteinsRIC & Hela2012 May 31Castello ADOI: 10.1016/j.cell.2012.04.031
27453046Comprehensive Identification of RNA-Binding Domains in Human CellsRIC & Hela2016 Aug 18Castello ADOI: 10.1016/j.molcel.2016.06.029
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000445776PSMD4-205703-ENSP00000388089193 (aa)-H0Y3Y9
ENST00000461434PSMD4-207801--- (aa)--
ENST00000469786PSMD4-209408--- (aa)--
ENST00000470396PSMD4-210338--- (aa)--
ENST00000453615PSMD4-206371-ENSP0000039663384 (aa)-H0Y561
ENST00000368884PSMD4-2021350XM_017001856ENSP00000357879377 (aa)XP_016857345P55036
ENST00000437736PSMD4-204787-ENSP00000414499203 (aa)-A6PVX3
ENST00000427779PSMD4-203649-ENSP0000040640839 (aa)-H7C2J9
ENST00000476855PSMD4-2111232--- (aa)--
ENST00000462970PSMD4-208900--- (aa)--
ENST00000491857PSMD4-212461--- (aa)--
ENST00000368881PSMD4-2011333XM_006711464ENSP00000357876380 (aa)XP_006711527Q5VWC4
Gene Model
Click here to download ENSG00000159352's gene model file
Pathways
Pathway IDPathway NameSource
hsa03050ProteasomeKEGG
hsa05169Epstein-Barr virus infectionKEGG
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000159352's network

* RBP PPI network refers to all genes directly bind to RBP
Orthologs identified by RBPome
Ensembl IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000159352PSMD4100100.000ENSMUSG00000005625Psmd49796.458Mus_musculus
ENSG00000159352PSMD49948.131YHR200WRPN108850.424Saccharomyces_cerevisiae
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000165MAPK cascade-TASProcess
GO:0000209protein polyubiquitination-TASProcess
GO:0000502proteasome complex17323924.IDAComponent
GO:0002223stimulatory C-type lectin receptor signaling pathway-TASProcess
GO:0002479antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent-TASProcess
GO:0003723RNA binding22658674.HDAFunction
GO:0005515protein binding10488153.11146632.15147878.16990800.17082820.17139257.17662948.18922472.19490896.19615732.19796170.19798103.20059542.20195357.24811749.25036637.26496610.29290612.29426014.29997244.IPIFunction
GO:0005634nucleus21873635.IBAComponent
GO:0005654nucleoplasm-IDAComponent
GO:0005654nucleoplasm-TASComponent
GO:0005829cytosol21873635.IBAComponent
GO:0005829cytosol-IDAComponent
GO:0005829cytosol-TASComponent
GO:0006521regulation of cellular amino acid metabolic process-TASProcess
GO:0008540proteasome regulatory particle, base subcomplex21873635.IBAComponent
GO:0010972negative regulation of G2/M transition of mitotic cell cycle-TASProcess
GO:0016579protein deubiquitination-TASProcess
GO:0022624proteasome accessory complex-ISSComponent
GO:0031145anaphase-promoting complex-dependent catabolic process-TASProcess
GO:0031146SCF-dependent proteasomal ubiquitin-dependent protein catabolic process-TASProcess
GO:0031593polyubiquitin modification-dependent protein binding21873635.IBAFunction
GO:0033209tumor necrosis factor-mediated signaling pathway-TASProcess
GO:0038061NIK/NF-kappaB signaling-TASProcess
GO:0038095Fc-epsilon receptor signaling pathway-TASProcess
GO:0042802identical protein binding16990800.19931242.IPIFunction
GO:0043161proteasome-mediated ubiquitin-dependent protein catabolic process21873635.IBAProcess
GO:0043161proteasome-mediated ubiquitin-dependent protein catabolic process-TASProcess
GO:0043248proteasome assembly21873635.IBAProcess
GO:0043488regulation of mRNA stability-TASProcess
GO:0043687post-translational protein modification-TASProcess
GO:0050852T cell receptor signaling pathway-TASProcess
GO:0055085transmembrane transport-TASProcess
GO:0060071Wnt signaling pathway, planar cell polarity pathway-TASProcess
GO:0061418regulation of transcription from RNA polymerase II promoter in response to hypoxia-TASProcess
GO:0070498interleukin-1-mediated signaling pathway-TASProcess
GO:0090090negative regulation of canonical Wnt signaling pathway-TASProcess
GO:0090263positive regulation of canonical Wnt signaling pathway-TASProcess
GO:1901990regulation of mitotic cell cycle phase transition-TASProcess
GO:1902036regulation of hematopoietic stem cell differentiation-TASProcess
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