EuRBPDB

Description

RBPome

Expression

Transcripts

Gene Model

Pathways

Phenotypes

GWAS

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000108344 (Gene tree)
Gene ID: 5709
Gene Symbol: PSMD3
Alias: S3|P58|Rpn3|TSTA2
Full Name: proteasome 26S subunit, non-ATPase 3
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 17,193 bases
Position: chr17:39,980,768-39,997,960
Accession: 9560
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. This gene encodes a member of the proteasome subunit S3 family that functions as one of the non-ATPase subunits of the 19S regulator lid. Single nucleotide polymorphisms in this gene are associated with neutrophil count. [provided by RefSeq, Jul 2012]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30528433	The Human RNA-Binding Proteome and Its Dynamics during Translational Arrest	XRNAX & HEK293	2018 Dec 6	Trendel J	DOI: 10.1016/j.cell.2018.11.004
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
ENST00000485835	PSMD3-203	2888	-	-	- (aa)	-	-
ENST00000415039	PSMD3-202	1598	-	ENSP00000407410	86 (aa)	-	F5H8K4
ENST00000264639	PSMD3-201	2158	-	ENSP00000264639	534 (aa)	-	O43242
ENST00000580980	PSMD3-205	580	-	-	- (aa)	-	-
ENST00000540504	PSMD3-204	458	-	ENSP00000444980	117 (aa)	-	H0YGV8

Gene Model

Click here to download ENSG00000108344'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
ENSG00000108344	Cell Adhesion Molecules	7.9920000E-005	-
ENSG00000108344	Leukocytes	2.5780000E-019	21738480
ENSG00000108344	Leukocytes	5.9030000E-016	21738480
ENSG00000108344	Leukocytes	3.3020000E-017	21738480
ENSG00000108344	Leukocytes	1.0860000E-014	21738480
ENSG00000108344	Leukocytes	3.5730000E-023	21738480
ENSG00000108344	Leukocytes	3.2200000E-013	21738480
ENSG00000108344	Neutrophils	4.0910000E-021	21738480
ENSG00000108344	Neutrophils	1.0050000E-015	21738480
ENSG00000108344	Neutrophils	3.4840000E-015	21738480
ENSG00000108344	Neutrophils	3.7130000E-017	21738480
ENSG00000108344	Neutrophils	2.8430000E-023	21738480
ENSG00000108344	Neutrophils	9.0090000E-016	21738480
ENSG00000108344	Neutrophils	2E-31	21738480
ENSG00000108344	Leukocyte Count	3E-14	20139978
ENSG00000108344	Leukocyte Count	3E-23	25096241
ENSG00000108344	Leukocyte Count	3E-19	25096241
ENSG00000108344	Leukocyte Count	3E-9	22788528
ENSG00000108344	Neutrophils	5E-11	28158719
ENSG00000108344	Neutrophils	4E-23	25096241
ENSG00000108344	Neutrophils	1E-10	25096241
ENSG00000108344	Neutrophils	3E-23	25096241
ENSG00000108344	Neutrophils	7E-11	25096241
ENSG00000108344	Neutrophils	6E-10	20172861
ENSG00000108344	Leukocyte Count	3E-12	25096241
ENSG00000108344	Leukocyte Count	4E-10	28158719
ENSG00000108344	Neutrophils	8E-9	28158719
ENSG00000108344	Leukocyte Count	1E-12	22037903
ENSG00000108344	Leukocyte Count	9E-35	21738480
ENSG00000108344	Neutrophils	4E-16	21738478
ENSG00000108344	Neutrophils	9E-25	25096241

GWAS

ensgID	SNP	Chromosome	Position	SNP-risk	Trait	PubmedID	95% CI	Or or BEAT	EFO ID
ENSG00000108344	rs4065321	17	39987295	T	White blood cell count	20139978	[0.070-0.118] unit decrease	0.094	EFO_0004308
ENSG00000108344	rs4065321	17	39987295	G	White blood cell count	22037903	[0.10-0.18] K/ul increase	0.14	EFO_0004308
ENSG00000108344	rs3785549	17	39993471	C	Lymphocyte percentage of white cells	27863252	[0.072-0.086] unit increase	0.07923921	EFO_0007993
ENSG00000108344	rs4065321	17	39987295	T	White blood cell count (basophil)	27863252	[0.044-0.058] unit decrease	0.05072893	EFO_0005090
ENSG00000108344	rs12450688	17	39987976	A	Sum eosinophil basophil counts	27863252	[0.02-0.034] unit decrease	0.02740322	EFO_0005090\|EFO_0004842
ENSG00000108344	rs8066582	17	39990676	C	Mitochondrial DNA copy number	30704525	[0.052-0.118] unit increase	0.085	EFO_0006312

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000108344'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
ENSG00000108344	PSMD3	91	43.487	WBGene00004460	rpn-3	94	44.215	Caenorhabditis_elegans
ENSG00000108344	PSMD3	92	31.599	YER021W	RPN3	85	33.933	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:0005515	protein binding	15147878.25416956.25814554.25910212.	IPI	Function
GO:0005576	extracellular region	-	TAS	Component
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0005829	cytosol	-	TAS	Component
GO:0006511	ubiquitin-dependent protein catabolic process	21873635.	IBA	Process
GO:0006521	regulation of cellular amino acid metabolic process	-	TAS	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:0030234	enzyme regulator activity	-	IEA	Function
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:0042176	regulation of protein catabolic process	-	IEA	Process
GO:0043161	proteasome-mediated ubiquitin-dependent protein catabolic process	-	TAS	Process
GO:0043312	neutrophil degranulation	-	TAS	Process
GO:0043488	regulation of mRNA stability	-	TAS	Process
GO:0043687	post-translational protein modification	-	TAS	Process
GO:0050790	regulation of catalytic activity	-	IEA	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:0070062	extracellular exosome	19056867.	HDA	Component
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