EuRBPDB

Description

RBPome

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000185627 (Gene tree)
Gene ID: 5719
Gene Symbol: PSMD13
Alias: p40.5|Rpn9
Full Name: proteasome 26S subunit, non-ATPase 13
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 16,439 bases
Position: chr11:236,546-252,984
Accession: 9558
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 a non-ATPase subunit of the 19S regulator. Two transcripts encoding different isoforms have been described. [provided by RefSeq, Jul 2008]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
29431736	Capturing the interactome of newly transcribed RNA	PolyT-RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595
29431736	Capturing the interactome of newly transcribed RNA	RICK & Hela	2018 Feb 12	Bao X	DOI: 10.1038/nmeth.4595

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000352303	PSMD13-201	1427	XM_011520235	ENSP00000333811	349 (aa)	XP_011518537	J3KNQ3
ENST00000527982	PSMD13-207	2200	-	-	- (aa)	-	-
ENST00000532097	PSMD13-212	1991	-	ENSP00000436186	376 (aa)	-	Q9UNM6
ENST00000533717	PSMD13-213	670	-	-	- (aa)	-	-
ENST00000526783	PSMD13-205	892	-	ENSP00000433115	221 (aa)	-	H0YD73
ENST00000529372	PSMD13-209	612	-	ENSP00000436795	113 (aa)	-	E9PQG3
ENST00000528906	PSMD13-208	858	-	ENSP00000433364	263 (aa)	-	E9PL38
ENST00000431206	PSMD13-203	1591	-	ENSP00000396937	378 (aa)	-	Q9UNM6
ENST00000621534	PSMD13-215	1572	-	ENSP00000478756	377 (aa)	-	A0A087WUL9
ENST00000534590	PSMD13-214	787	-	-	- (aa)	-	-
ENST00000527047	PSMD13-206	1284	-	-	- (aa)	-	-
ENST00000525665	PSMD13-204	1632	-	ENSP00000434587	70 (aa)	-	E9PPD2
ENST00000382671	PSMD13-202	1489	-	ENSP00000372117	72 (aa)	-	F8W8J6
ENST00000529679	PSMD13-210	507	-	-	- (aa)	-	-
ENST00000532025	PSMD13-211	653	-	-	- (aa)	-	-

Gene Model

Click here to download ENSG00000185627's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa03050	Proteasome	KEGG
hsa05169	Epstein-Barr virus infection	KEGG

Phenotypes

ensgID	Trait	pValue	Pubmed ID
ENSG00000185627	Platelet Function Tests	1.1868300E-005	-
ENSG00000185627	Platelet Count	7E-25	22139419

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000185627	rs505404	11	243268	G	Platelet count	22139419	[3.77-5.55] 10^9/l increase	4.662	EFO_0004309
ENSG00000185627	rs505404	11	243268	T	Total body bone mineral density	29304378	unit decrease	0.0521	EFO_0003923
ENSG00000185627	rs55781332	11	242859	A	Total body bone mineral density (age 30-45)	29304378	unit decrease	0.1088	EFO_0003923
ENSG00000185627	rs55781332	11	242859	A	Total body bone mineral density	29304378	unit decrease	0.0552	EFO_0003923
ENSG00000185627	rs6540	11	252649	A	Endometriosis	28881265	[1.867-4.944]	3.038	EFO_0001065

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000185627's network

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

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000185627	PSMD13	96	31.135	YDR427W		95	31.135	Saccharomyces_cerevisiae

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000165	MAPK cascade	-	TAS	Process
GO:0000209	protein polyubiquitination	-	TAS	Process
GO:0000502	proteasome complex	17323924.	IDA	Component
GO:0002223	stimulatory C-type lectin receptor signaling pathway	-	TAS	Process
GO:0002479	antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent	-	TAS	Process
GO:0005198	structural molecule activity	21873635.	IBA	Function
GO:0005576	extracellular region	-	TAS	Component
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005829	cytosol	21873635.	IBA	Component
GO:0005829	cytosol	-	TAS	Component
GO:0005838	proteasome regulatory particle	9714768.	TAS	Component
GO:0006511	ubiquitin-dependent protein catabolic process	21873635.	IBA	Process
GO:0006521	regulation of cellular amino acid metabolic process	-	TAS	Process
GO:0007127	meiosis I	-	IEA	Process
GO:0008541	proteasome regulatory particle, lid subcomplex	21873635.	IBA	Component
GO:0010972	negative regulation of G2/M transition of mitotic cell cycle	-	TAS	Process
GO:0016020	membrane	19946888.	HDA	Component
GO:0016579	protein deubiquitination	-	TAS	Process
GO:0022624	proteasome accessory complex	-	ISS	Component
GO:0031145	anaphase-promoting complex-dependent catabolic process	-	TAS	Process
GO:0031146	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	-	TAS	Process
GO:0033209	tumor necrosis factor-mediated signaling pathway	-	TAS	Process
GO:0034774	secretory granule lumen	-	TAS	Component
GO:0038061	NIK/NF-kappaB signaling	-	TAS	Process
GO:0038095	Fc-epsilon receptor signaling pathway	-	TAS	Process
GO:0043161	proteasome-mediated ubiquitin-dependent protein catabolic process	-	TAS	Process
GO:0043248	proteasome assembly	21873635.	IBA	Process
GO:0043312	neutrophil degranulation	-	TAS	Process
GO:0043488	regulation of mRNA stability	-	TAS	Process
GO:0043687	post-translational protein modification	-	TAS	Process
GO:0050852	T cell receptor signaling pathway	-	TAS	Process
GO:0055085	transmembrane transport	-	TAS	Process
GO:0060071	Wnt signaling pathway, planar cell polarity pathway	-	TAS	Process
GO:0061418	regulation of transcription from RNA polymerase II promoter in response to hypoxia	-	TAS	Process
GO:0070498	interleukin-1-mediated signaling pathway	-	TAS	Process
GO:0090090	negative regulation of canonical Wnt signaling pathway	-	TAS	Process
GO:0090263	positive regulation of canonical Wnt signaling pathway	-	TAS	Process
GO:1901990	regulation of mitotic cell cycle phase transition	-	TAS	Process
GO:1902036	regulation of hematopoietic stem cell differentiation	-	TAS	Process
GO:1904813	ficolin-1-rich granule lumen	-	TAS	Component