EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

PPI

Gene Ontology

Description

Ensembl ID: ENSG00000184363 (Gene tree)
Gene ID: 11187
Gene Symbol: PKP3
Alias: N
Full Name: plakophilin 3
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 12,310 bases
Position: chr11:392,599-404,908
Accession: 9025
RBP type: non-canonical RBP
Summary: This gene encodes a member of the arm-repeat (armadillo) and plakophilin gene families. Plakophilin proteins contain numerous armadillo repeats, localize to cell desmosomes and nuclei, and participate in linking cadherins to intermediate filaments in the cytoskeleton. This protein may act in cellular desmosome-dependent adhesion and signaling pathways. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2014]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & MCF7	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
16407409	Identification of the junctional plaque protein plakophilin 3 in cytoplasmic particles containing RNA-binding proteins and the recruitment of plakophilins 1 and 3 to stress granules.	Mol Biol Cell	2006 Mar	Hofmann I	-
23881279	Plakophilin-associated RNA-binding proteins in prostate cancer and their implications in tumor progression and metastasis.	Virchows Arch	2013 Sep	Yang C	doi: 10.1007/s00428-013-1452-y
25225333	Plakophilins 1 and 3 bind to FXR1 and thereby influence the mRNA stability of desmosomal proteins.	Mol Cell Biol	2014 Dec 1	Fischer-Keso R	doi: 10.1128/MCB.00766-14

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000533069	PKP3-209	590	-	-	- (aa)	-	-
ENST00000526971	PKP3-204	532	-	-	- (aa)	-	-
ENST00000527442	PKP3-205	847	-	ENSP00000435522	120 (aa)	-	E9PJR7
ENST00000530695	PKP3-207	441	-	-	- (aa)	-	-
ENST00000524646	PKP3-202	312	-	-	- (aa)	-	-
ENST00000531857	PKP3-208	687	-	ENSP00000435478	212 (aa)	-	E9PK71
ENST00000525642	PKP3-203	495	-	ENSP00000436847	115 (aa)	-	H0YEY5
ENST00000534401	PKP3-211	756	-	ENSP00000434517	247 (aa)	-	E9PQ15
ENST00000528036	PKP3-206	940	-	ENSP00000434110	156 (aa)	-	E9PRW6
ENST00000533249	PKP3-210	1111	-	ENSP00000435383	197 (aa)	-	E9PKC4
ENST00000331563	PKP3-201	2809	-	ENSP00000331678	797 (aa)	-	Q9Y446

Gene Model

Click here to download ENSG00000184363's gene model file

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000184363's network

* RBP PPI network refers to all genes directly bind to RBP

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0001533	cornified envelope	-	TAS	Component
GO:0002159	desmosome assembly	20859650.	IMP	Process
GO:0003723	RNA binding	25225333.	IDA	Function
GO:0005515	protein binding	25225333.	IPI	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005654	nucleoplasm	-	IDA	Component
GO:0005737	cytoplasm	21873635.	IBA	Component
GO:0005886	plasma membrane	21873635.	IBA	Component
GO:0005886	plasma membrane	20859650.	IDA	Component
GO:0005886	plasma membrane	-	TAS	Component
GO:0005911	cell-cell junction	21873635.	IBA	Component
GO:0005913	cell-cell adherens junction	25468996.	HDA	Component
GO:0005913	cell-cell adherens junction	21873635.	IBA	Component
GO:0006417	regulation of translation	25225333.	IMP	Process
GO:0007043	cell-cell junction assembly	21873635.	IBA	Process
GO:0010628	positive regulation of gene expression	25225333.	IMP	Process
GO:0019899	enzyme binding	25225333.	IPI	Function
GO:0030054	cell junction	-	IDA	Component
GO:0030057	desmosome	-	IEA	Component
GO:0031424	keratinization	-	TAS	Process
GO:0045182	translation regulator activity	25225333.	IMP	Function
GO:0045294	alpha-catenin binding	23136403.	IPI	Function
GO:0045296	cadherin binding	21873635.	IBA	Function
GO:0050839	cell adhesion molecule binding	20859650.	IPI	Function
GO:0070268	cornification	-	TAS	Process
GO:0072659	protein localization to plasma membrane	20859650.	IMP	Process
GO:0098609	cell-cell adhesion	21873635.	IBA	Process
GO:0098641	cadherin binding involved in cell-cell adhesion	25468996.	HDA	Function
GO:1902373	negative regulation of mRNA catabolic process	25225333.	IMP	Process
GO:1990124	messenger ribonucleoprotein complex	25225333.	IDA	Component

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
18801625	Bioinformatics approach to mRNA markers discovery for detection of circulating tumor cells in patients with gastrointestinal cancer.	Cancer Detect Prev	2008	Valladares-Ayerbes M	doi: 10.1016/j.cdp.2008.08.002
25875355	MMP7 is required to mediate cell invasion and tumor formation upon Plakophilin3 loss.	PLoS One	2015 Apr 13	Basu S	doi: 10.1371/journal.pone.0123979
29722422	Expression of plakophilin 3 in diffuse malignant pleural mesothelioma.	Histol Histopathol	2018 Sep	Mai S	doi: 10.14670/HH-11-996
21947748	Expression of Plakophilins (PKP1, PKP2, and PKP3) in breast cancers.	Med Oncol	2012 Sep	Demirag GG	doi: 10.1007/s12032-011-0071-1
20348237	Desmosomal plakophilins in the prostate and prostatic adenocarcinomas: implications for diagnosis and tumor progression.	Am J Pathol	2010 May	Breuninger S	doi: 10.2353/ajpath.2010.090737
20501752	Evaluation of plakophilin-3 mRNA as a biomarker for detection of circulating tumor cells in gastrointestinal cancer patients.	Cancer Epidemiol Biomarkers Prev	2010 Jun	Valladares-Ayerbes M	doi: 10.1158/1055-9965.EPI-10-0123

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq
BLCA	chr11	399033	Silent	novel	F370F	0.33
BLCA	chr11	404268	Missense_Mutation	NA	S768F	0.34
BLCA	chr11	397662	Splice_Region	novel	Q356Q	0.21
BRCA	chr11	400018	Missense_Mutation	NA	R442K	0.19
BRCA	chr11	397562	Missense_Mutation	NA	S323L	0.15
BRCA	chr11	403681	Missense_Mutation	NA	R663C	0.5
BRCA	chr11	404567	Nonstop_Mutation	novel	798Qext?	0.13
CESC	chr11	397562	Nonsense_Mutation	novel	S323*	0.12
CESC	chr11	400353	Missense_Mutation	NA	Q490K	0.45
CESC	chr11	400063	Missense_Mutation	rs779832282	S457L	0.71
CESC	chr11	400104	Missense_Mutation	rs368733672	E471K	0.35
CESC	chr11	399985	Missense_Mutation	NA	S431L	0.23
CESC	chr11	397562	Missense_Mutation	NA	S323L	0.43
CESC	chr11	400018	Missense_Mutation	NA	R442K	0.29
COAD	chr11	400076	Frame_Shift_Ins	rs781609202	*L464Pfs224**	0.46
COAD	chr11	397555	Missense_Mutation	NA	L321M	0.43
COAD	chr11	397330	Nonsense_Mutation	rs755412958	R277*	0.44
COAD	chr11	403108	Missense_Mutation	NA	A590T	0.48
COAD	chr11	396648	Silent	novel	F91F	0.24
COAD	chr11	397066	Missense_Mutation	rs554635370	G189R	0.29
COAD	chr11	400077	Frame_Shift_Del	rs757594408	*L464Sfs183**	0.22
COAD	chr11	400077	Frame_Shift_Del	rs757594408	*L464Sfs183**	0.44
COAD	chr11	397258	Nonsense_Mutation	novel	R253*	0.15
COAD	chr11	400077	Frame_Shift_Del	rs757594408	*L464Sfs183**	0.22
COAD	chr11	404630	3'UTR	novel		0.26
COAD	chr11	397604	Missense_Mutation	novel	V337A	0.27
COAD	chr11	403707	Silent	rs142922289	Q671Q	0.38
GBM	chr11	404670	3'UTR	novel		0.89
GBM	chr11	396989	Missense_Mutation	novel	S163F	0.54
HNSC	chr11	404002	Frame_Shift_Del	novel	*P714Qfs9**	0.33
HNSC	chr11	404683	3'UTR	novel		0.18
HNSC	chr11	404005	Missense_Mutation	novel	P714S	0.25
HNSC	chr11	404053	Missense_Mutation	novel	V730M	0.22
HNSC	chr11	399010	Missense_Mutation	rs141688536	V363M	0.13
HNSC	chr11	399093	Nonsense_Mutation	novel	Y390*	0.27
HNSC	chr11	404318	Missense_Mutation	novel	R785W	0.25
KIRC	chr11	404596	3'UTR	novel		0.16
KIRP	chr11	396835	Missense_Mutation	novel	P112T	0.38
KIRP	chr11	404095	Missense_Mutation	rs201401216	G744R	0.43
LGG	chr11	397651	Missense_Mutation	rs148819261	A353T	0.13
LGG	chr11	399104	Missense_Mutation	novel	D394G	0.15
LGG	chr11	396684	Silent	novel	T103T	0.45
LIHC	chr11	404567	Nonstop_Mutation	novel	798Kext?	0.21
LIHC	chr11	403646	In_Frame_Ins	novel	Q653_E654dup	0.05
LIHC	chr11	399156	Silent	novel	T411T	0.25
LUAD	chr11	397119	Silent	NA	A206A	0.38
LUAD	chr11	397046	Missense_Mutation	rs772575836	R182L	0.11
LUAD	chr11	403755	Missense_Mutation	NA	R687S	0.16
LUSC	chr11	399030	Silent	NA	L369L	0.14
LUSC	chr11	399027	Missense_Mutation	novel	K368N	0.36
LUSC	chr11	399057	Missense_Mutation	novel	Q378H	0.34
LUSC	chr11	404115	Missense_Mutation	novel	F750L	0.26
LUSC	chr11	399087	Silent	novel	L388L	0.31
LUSC	chr11	397410	Nonsense_Mutation	novel	Y303*	0.24
LUSC	chr11	397085	Missense_Mutation	novel	Y195C	0.39
MESO	chr11	403767	Missense_Mutation	novel	E691D	0.26
OV	chr11	397268	Missense_Mutation	NA	S256N	0.62
PAAD	chr11	396980	Missense_Mutation	novel	R160K	0.25
PAAD	chr11	399008	Missense_Mutation	novel	A362V	0.15
PRAD	chr11	404596	3'UTR	novel		0.43
READ	chr11	400094	Missense_Mutation	rs775543180	Q467H	0.54
SARC	chr11	404615	3'UTR	rs766515522		0.15
SKCM	chr11	404129	Missense_Mutation	rs79659860	R755Q	0.24
SKCM	chr11	400083	Missense_Mutation	rs764386462	L464F	0.64
SKCM	chr11	397067	Missense_Mutation	NA	G189E	0.17
SKCM	chr11	397259	Missense_Mutation	NA	R253Q	0.21
SKCM	chr11	396916	Missense_Mutation	rs763137982	G139R	0.87
SKCM	chr11	397183	Missense_Mutation	NA	G228R	0.42
SKCM	chr11	404586	3'UTR	novel		0.88
SKCM	chr11	404588	3'UTR	rs770498234		0.88
SKCM	chr11	403755	Silent	novel	R687R	0.11
SKCM	chr11	404269	Silent	novel	S768S	0.38
SKCM	chr11	396968	Missense_Mutation	NA	P156L	0.31
SKCM	chr11	399048	Silent	NA	Q375Q	0.33
SKCM	chr11	404583	3'UTR	novel		0.14
SKCM	chr11	404102	Missense_Mutation	NA	R746Q	0.33
SKCM	chr11	404551	Silent	NA	E792E	0.16
SKCM	chr11	397656	Silent	NA	K354K	0.32
SKCM	chr11	397559	Missense_Mutation	NA	P322L	0.2
SKCM	chr11	399013	Missense_Mutation	rs767485120	P364S	0.32
SKCM	chr11	403636	Missense_Mutation	rs370327820	R648C	0.14
SKCM	chr11	396967	Missense_Mutation	novel	P156S	0.29
SKCM	chr11	397006	Missense_Mutation	NA	G169R	0.2
SKCM	chr11	404557	Silent	NA	F794F	0.68
SKCM	chr11	400004	Silent	NA	K437K	0.46
SKCM	chr11	400067	Silent	novel	G458G	0.64
SKCM	chr11	403947	Silent	rs560629668	T694T	0.27
SKCM	chr11	397181	Missense_Mutation	NA	G227E	0.51
SKCM	chr11	400004	Silent	NA	K437K	0.2
STAD	chr11	404544	Missense_Mutation	rs754533171	R790Q	0.34
STAD	chr11	397114	Missense_Mutation	rs762556650	A205T	0.12
STAD	chr11	403637	Missense_Mutation	rs757603200	R648H	0.49
STAD	chr11	400009	Missense_Mutation	rs144679997	R439H	0.18
STAD	chr11	396663	Silent	rs773017368	Q96Q	0.22
STAD	chr11	399100	Missense_Mutation	rs756559215	A393T	0.17
STAD	chr11	400055	Frame_Shift_Del	novel	*L456Cfs191**	0.33
STAD	chr11	404061	Frame_Shift_Del	novel	*I734Sfs66**	0.14
STAD	chr11	399184	Frame_Shift_Del	novel	*N422Mfs15**	0.36
STAD	chr11	397169	Missense_Mutation	NA	S223C	0.1
STAD	chr11	400071	Frame_Shift_Del	rs751960573	*G461Vfs186**	0.24
STAD	chr11	397311	Silent	novel	A270A	0.4
STAD	chr11	400076	Frame_Shift_Ins	rs781609202	*L464Pfs224**	0.58
UCEC	chr11	404002	Missense_Mutation	novel	P713S	0.46
UCEC	chr11	404577	3'UTR	novel		0.26
UCEC	chr11	396974	Missense_Mutation	NA	P158H	0.46
UCEC	chr11	397421	Missense_Mutation	novel	R307Q	0.5
UCEC	chr11	400076	Frame_Shift_Ins	rs781609202	*L464Pfs224**	0.46
UCEC	chr11	397386	Silent	rs369281192	P295P	0.6
UCEC	chr11	404048	Missense_Mutation	rs755721199	L728P	0.36
UCEC	chr11	403696	Missense_Mutation	rs375964684	D668N	0.3
UCEC	chr11	403710	Silent	NA	L672L	0.27
UCEC	chr11	400131	Missense_Mutation	novel	G480S	0.13
UCEC	chr11	399007	Missense_Mutation	novel	A362T	0.3
UCEC	chr11	400431	Missense_Mutation	novel	A516T	0.46
UCEC	chr11	397626	Silent	novel	Q344Q	0.36
UCEC	chr11	404054	Missense_Mutation	rs201654884	V730A	0.35
UCEC	chr11	399132	Silent	rs778602530	N403N	0.21
UCEC	chr11	399142	Missense_Mutation	rs770854435	E407K	0.18
UCEC	chr11	400374	Missense_Mutation	rs796260537	R497W	0.41
UCEC	chr11	399972	Missense_Mutation	rs779964513	L427M	0.39
UCEC	chr11	403622	Missense_Mutation	rs201248875	A643V	0.32
UCEC	chr11	404135	Missense_Mutation	novel	S757I	0.24

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
BRCA	DEL	0.2481	3.0727e-19
CESC	DEL	0.2949	0.02701
ESCA	AMP	0.1141	0.018342
ESCA	DEL	0.3478	0.0016785
GBM	DEL	0.1837	0.0048476
HNSC	DEL	0.2471	0.00051729
LUAD	DEL	0.1899	0.00044751
LUSC	DEL	0.3872	4.3974e-14
PAAD	DEL	0.1087	0.022808
PCPG	AMP	0.0309	0.23196
PCPG	DEL	0.3333	0.00064285
SARC	DEL	0.3969	8.2878e-09
TGCT	DEL	0.56	0.21504
UCEC	DEL	0.1781	2.4803e-07

Survival Analysis

Cancer	P-value	Q-value
THYM	0.02	Kaplan-Meier Survival Analysis
MESO	0.00025	Kaplan-Meier Survival Analysis
ACC	0.017	Kaplan-Meier Survival Analysis
SKCM	0.036	Kaplan-Meier Survival Analysis
PRAD	0.028	Kaplan-Meier Survival Analysis
LUSC	0.015	Kaplan-Meier Survival Analysis
PAAD	0.00017	Kaplan-Meier Survival Analysis
BLCA	0.023	Kaplan-Meier Survival Analysis
CESC	0.033	Kaplan-Meier Survival Analysis
KICH	0.026	Kaplan-Meier Survival Analysis
UCEC	0.044	Kaplan-Meier Survival Analysis
GBM	0.0017	Kaplan-Meier Survival Analysis
LUAD	0.0015	Kaplan-Meier Survival Analysis
OV	0.0077	Kaplan-Meier Survival Analysis

Drugs

EuRBPDB

Description

RBPome

Literatures

Expression

Transcripts

Gene Model

PPI

Gene Ontology

Select Dataset :

Input Drug :

Input Cell Line :

Eesembl ID

Cell lines and drugs in GSE70138 or GSE92742