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
22074005Proteomic approach reveals FKBP4 and S100A9 as potential prediction markers of therapeutic response to neoadjuvant chemotherapy in patients with breast cancer.J Proteome Res2012 Feb 3Yang WSdoi: 10.1021/pr2008187
19584157Identification of a new panel of serum autoantibodies associated with the presence of in situ carcinoma of the breast in younger women.Clin Cancer Res2009 Jul 15Desmetz Cdoi: 10.1158/1078-0432.CCR-08-3307

Differential Expression

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
ACCchr122803164Missense_Mutationrs770611717A429G0.27
ACCchr122801232Missense_MutationnovelY383C0.6
BLCAchr122798783Silentrs776356873R157R0.07
BLCAchr122798757Missense_Mutationrs772045995G149R0.19
BLCAchr122799213Missense_MutationnovelG214R0.45
BLCAchr122800078Missense_MutationnovelE268K0.4
BLCAchr122800481Missense_MutationnovelQ312H0.69
BLCAchr122800577Missense_MutationnovelK344N0.62
BRCAchr122800520SilentnovelL325L0.38
BRCAchr122799139Missense_Mutationrs55672055R189H0.11
BRCAchr122801215Silentrs753568828Q377Q0.33
BRCAchr122801307Missense_MutationnovelK408R0.1
CESCchr122799236Silentrs777530787L221L0.22
CESCchr122801192Missense_MutationNAE370K0.12
CESCchr122797844Frame_Shift_InsnovelN125Qfs*70.27
CESCchr122800521Missense_MutationnovelA326S0.15
CESCchr122795165Missense_MutationNAT9I0.55
CESCchr122800099Missense_MutationNAE275Q0.18
CESCchr122800433SilentnovelI296I0.21
COADchr122798756SilentNAG148G0.28
COADchr122800044Missense_MutationNAK256N0.08
COADchr122801213Nonsense_MutationnovelQ377*0.15
COADchr122803221Missense_Mutationrs766636474T448M0.4
COADchr1227950775'UTRnovel0.43
COADchr122800102Missense_Mutationrs372836178R276W0.43
COADchr122797859Silentrs370885732T127T0.5
COADchr122799202Missense_Mutationrs766142249R210H0.64
ESCAchr122799851Missense_MutationnovelY225H0.15
ESCAchr1228034963'UTRnovel0.28
GBMchr122799129Missense_Mutationrs780740336R186W0.5
HNSCchr122800561Missense_Mutationrs539277079I339T0.2
HNSCchr122798736Missense_MutationnovelL142M0.25
HNSCchr122797869Missense_MutationnovelE131Q0.24
KICHchr122798817Missense_Mutationrs761447742I169V0.47
KIRPchr122799886Silentrs201311104Q236Q0.58
KIRPchr122801162Missense_MutationNAG360R0.23
KIRPchr122800412SilentNAA289A0.18
KIRPchr122798764Missense_MutationnovelI151T0.25
KIRPchr1227950875'UTRnovel0.26
KIRPchr122801146Missense_MutationNAK354N0.28
LGGchr122801153Missense_MutationnovelF357L0.11
LGGchr122800578Splice_SitenovelX344_splice0.48
LGGchr122801350SilentNAE422E0.15
LIHCchr122801298Missense_MutationnovelA405V0.06
LIHCchr122800100Missense_MutationNAE275G0.42
LIHCchr122795245Splice_SiteNAX35_splice0.41
LUADchr122797177Missense_MutationnovelI49V0.3
LUADchr122801281SilentnovelR399R0.19
LUADchr122798787Missense_MutationnovelE159K0.25
LUSCchr122797805SilentNAP109P0.11
LUSCchr122798745Missense_MutationnovelE145Q0.04
OVchr122799218Missense_MutationnovelE215D0.06
OVchr122797203Nonsense_MutationnovelY57*0.1
PAADchr122798711SilentnovelE133E0.16
PRADchr122801278Missense_MutationNAQ398H0.16
PRADchr122800390Splice_SitenovelX283_splice0.48
READchr1228032593'UTRnovel0.71
READchr122801286Missense_Mutationrs199923813R401Q0.7
READchr122799090Missense_MutationnovelA173T0.1
SARCchr122798781Missense_MutationNAR157C0.48
SKCMchr122801256Missense_MutationnovelT391I0.27
SKCMchr122801257SilentnovelT391T0.26
SKCMchr122797266SilentNAS78S0.36
SKCMchr122800465Missense_MutationNAS307F0.35
SKCMchr122799216Missense_MutationNAE215K0.52
STADchr122795214Silentrs778270440I25I0.33
STADchr122798782Missense_Mutationrs1062478R157H0.34
STADchr122803187Missense_MutationNAD437N0.52
STADchr1227950575'UTRnovel0.5
STADchr122797845Frame_Shift_DelnovelN125Mfs*180.11
STADchr122800558Missense_MutationNAA338V0.17
STADchr122801314Silentrs762943432L410L0.47
STADchr122798756SilentNAG148G0.2
TGCTchr122799167SilentnovelL198L0.18
UCECchr122799848Splice_Siters755320293X224_splice0.43
UCECchr1228037613'UTRnovel0.4
UCECchr122797167Missense_MutationnovelE45D0.04
UCECchr122797159Missense_MutationNAG43S0.27
UCECchr122798766Missense_Mutationrs142464168R152C0.23
UCECchr122801143Missense_MutationnovelE353D0.19
UCECchr122800050SilentNAS258S0.31
UCECchr122799202Missense_Mutationrs766142249R210H0.39
UCECchr1228038663'UTRnovel0.37
UCECchr122800102Frame_Shift_DelnovelR276Gfs*550.5
UCECchr122798781Missense_MutationNAR157C0.33
UCECchr122799850Splice_RegionnovelS224S0.26
UCECchr122797860Missense_MutationnovelL128F0.4
UCECchr122799129Missense_Mutationrs780740336R186W0.32
UCECchr1228037233'UTRnovel0.34
UCECchr122800497Nonsense_MutationnovelR318*0.28
UCECchr122797855Missense_MutationnovelA126V0.38
UCECchr122800498Missense_MutationnovelR318Q0.41
UCECchr1228037503'UTRnovel0.47
UCECchr122800046Missense_MutationNAE257G0.27
UCECchr122800566Missense_MutationnovelS341R0.41
UCECchr1228038453'UTRrs7803924780.3
UCECchr1228040603'UTRnovel0.33
UCECchr122801188Frame_Shift_InsnovelE370*0.29
UCECchr122797858Missense_Mutationrs749174239T127M0.2
UCECchr122799928Missense_MutationnovelK250N0.09
UCECchr122797756Missense_MutationnovelA93V0.38
UCECchr1228037473'UTRnovel0.41
UCECchr1228039913'UTRnovel0.5
UCECchr122801118Missense_MutationnovelA345D0.33
UCECchr122798756SilentNAG148G0.21
UCECchr122797845Frame_Shift_DelnovelN125Mfs*180.58
UCECchr122801179Silentrs749685904A365A0.37

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
COADAMP0.21952.8622e-08
DLBCDEL0.08330.11856
LUSCAMP0.40920.0059474
OVAMP0.5321.6751e-06
PAADAMP0.14670.0041088
READAMP0.20610.027505
TGCTAMP0.93333.5918e-21
THYMAMP0.03250.24554

Survival Analysis
CancerP-value Q-value
KIRC0.033

Kaplan-Meier Survival Analysis

SARC0.0026

Kaplan-Meier Survival Analysis

MESO0.00092

Kaplan-Meier Survival Analysis

ACC0.043

Kaplan-Meier Survival Analysis

SKCM0.00028

Kaplan-Meier Survival Analysis

LUSC0.038

Kaplan-Meier Survival Analysis

ESCA0.046

Kaplan-Meier Survival Analysis

KIRP0.0054

Kaplan-Meier Survival Analysis

COAD0.013

Kaplan-Meier Survival Analysis

PAAD0.021

Kaplan-Meier Survival Analysis

PCPG0.021

Kaplan-Meier Survival Analysis

KICH0.044

Kaplan-Meier Survival Analysis

UCEC0.0011

Kaplan-Meier Survival Analysis

LIHC0.0001

Kaplan-Meier Survival Analysis

LGG0.016

Kaplan-Meier Survival Analysis

LUAD0.0001

Kaplan-Meier Survival Analysis

Drugs

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Eesembl ID



Cell lines and drugs in GSE70138 or GSE92742

  • Description
  • RBPome
  • PRI
  • Literatures
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • GWAS
  • PPI
  • Gene Ontology
Description
Ensembl ID
ENSG00000004478 (Gene tree)
Gene ID
2288
Gene Symbol
FKBP4
Alias
FKBP59|FKBP52
Full Name
FKBP prolyl isomerase 4
Gene Type
protein_coding
Species
Homo_sapiens
Status
confidence
Strand
Plus strand
Length
10,482 bases
Position
chr12:2,794,942-2,805,423
Accession
3720
RBP type
non-canonical RBP
Summary
The protein encoded by this gene is a member of the immunophilin protein family, which play a role in immunoregulation and basic cellular processes involving protein folding and trafficking. This encoded protein is a cis-trans prolyl isomerase that binds to the immunosuppressants FK506 and rapamycin. It has high structural and functional similarity to FK506-binding protein 1A (FKBP1A), but unlike FKBP1A, this protein does not have immunosuppressant activity when complexed with FK506. It interacts with interferon regulatory factor-4 and plays an important role in immunoregulatory gene expression in B and T lymphocytes. This encoded protein is known to associate with phytanoyl-CoA alpha-hydroxylase. It can also associate with two heat shock proteins (hsp90 and hsp70) and thus may play a role in the intracellular trafficking of hetero-oligomeric forms of the steroid hormone receptors. This protein correlates strongly with adeno-associated virus type 2 vectors (AAV) resulting in a significant increase in AAV-mediated transgene expression in human cell lines. Thus this encoded protein is thought to have important implications for the optimal use of AAV vectors in human gene therapy. The human genome contains several non-transcribed pseudogenes similar to this gene. [provided by RefSeq, Sep 2008]
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & HEK2932019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & HEK2932018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
29431736Capturing the interactome of newly transcribed RNAPolyT-RICK & Hela2018 Feb 12Bao XDOI: 10.1038/nmeth.4595
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
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & MCF10A2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & U2OS2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
Protein-RNA interaction(RNA-Binding Site)
Click here to download all RNA binding sites

Literatures on RNA binding capacity
PIDTitleArticle TimeAuthorDoi
7893829Binding of eukaryotic initiation factor-2 and trans-acting factors to the 5' untranslated region of encephalomyocarditis virus RNA.Biochimie1994Scheper GC-
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000630279FKBP4-208156-ENSP0000048680051 (aa)-F5H120
ENST00000539181FKBP4-203370-ENSP0000043849184 (aa)-H0YFG2
ENST00000540260FKBP4-204777--- (aa)--
ENST00000543769FKBP4-206425-ENSP0000043970351 (aa)-F5H120
ENST00000001008FKBP4-2013732XM_011520929ENSP00000001008459 (aa)XP_011519231Q02790
ENST00000538622FKBP4-202572-ENSP0000044636886 (aa)-F5H1U3
ENST00000543037FKBP4-205727--- (aa)--
ENST00000544366FKBP4-207287-ENSP0000044219323 (aa)-H0YG86
Gene Model
Click here to download ENSG00000004478's gene model file
Pathways
Pathway IDPathway NameSource
hsa04915Estrogen signaling pathwayKEGG
GWAS
ensgIDSNPChromosomePositionSNP-risk TraitPubmedID95% CIOr or BEAT EFO ID
ENSG00000004478rs56196860122799164?Heel bone mineral density30048462[0.024-0.047] unit decrease0.0354551EFO_0009270
ENSG00000004478rs56196860122799164?Lung function (FVC)30595370EFO_0004312
ENSG00000004478rs56196860122799164?Waist-hip ratio30595370EFO_0004343
ENSG00000004478rs56196860122799164ALung function (FVC)30804560[0.04-0.067] unit decrease0.0531EFO_0004312
ENSG00000004478rs56196860122799164AFEV130804560[0.031-0.058] unit decrease0.0446EFO_0004314
ENSG00000004478rs56196860122799164APeak expiratory flow30804560[0.02-0.049] unit decrease0.0345
ENSG00000004478rs56196860122799164?Heel bone mineral density30595370EFO_0009270
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000004478's network

* RBP PPI network refers to all genes directly bind to RBP
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000413protein peptidyl-prolyl isomerization21873635.IBAProcess
GO:0003723RNA binding22658674.HDAFunction
GO:0003755peptidyl-prolyl cis-trans isomerase activity21873635.IBAFunction
GO:0003755peptidyl-prolyl cis-trans isomerase activity11350175.IDAFunction
GO:0005515protein binding11583998.12604780.14638689.19875381.20188096.21170051.21360678.21730179.23741051.25036637.25277244.IPIFunction
GO:0005524ATP binding-IEAFunction
GO:0005525GTP binding-IEAFunction
GO:0005528FK506 binding1376003.TASFunction
GO:0005654nucleoplasm-IDAComponent
GO:0005654nucleoplasm-TASComponent
GO:0005737cytoplasm21873635.IBAComponent
GO:0005739mitochondrion-IEAComponent
GO:0005829cytosol-IDAComponent
GO:0005829cytosol-ISSComponent
GO:0005829cytosol-TASComponent
GO:0005874microtubule-IEAComponent
GO:0006457protein folding1279700.TASProcess
GO:0006463steroid hormone receptor complex assembly-IEAProcess
GO:0006825copper ion transport-IEAProcess
GO:0007566embryo implantation-IEAProcess
GO:0010977negative regulation of neuron projection development-ISSProcess
GO:0030521androgen receptor signaling pathway-IEAProcess
GO:0030674protein binding, bridging2378870.TASFunction
GO:0030850prostate gland development-IEAProcess
GO:0031072heat shock protein binding9660753.IPIFunction
GO:0031111negative regulation of microtubule polymerization or depolymerization-ISSProcess
GO:0031115negative regulation of microtubule polymerization-IEAProcess
GO:0031503protein-containing complex localization-IEAProcess
GO:0032767copper-dependent protein binding-IEAFunction
GO:0032991protein-containing complex-IEAComponent
GO:0035259glucocorticoid receptor binding-IEAFunction
GO:0043025neuronal cell body-IEAComponent
GO:0044295axonal growth cone-ISSComponent
GO:0046661male sex differentiation-IEAProcess
GO:0048156tau protein binding-IEAFunction
GO:0048471perinuclear region of cytoplasm-IEAComponent
GO:0051219phosphoprotein binding-IEAFunction
GO:0061077chaperone-mediated protein folding21873635.IBAProcess
GO:0061077chaperone-mediated protein folding11350175.IDAProcess
GO:0070062extracellular exosome19056867.20458337.HDAComponent
GO:1900034regulation of cellular response to heat-TASProcess
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