Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

PSMD4 (proteasome 26S subunit, non-ATPase 4)

Identity

Alias_namesproteasome (prosome
Alias_symbol (synonym)S5A
AF-1
AF
Rpn10
Other aliasASF
MCB1
pUB-R5
HGNC (Hugo) PSMD4
LocusID (NCBI) 5710
Atlas_Id 47575
Location 1q21.3  [Link to chromosome band 1q21]
Location_base_pair Starts at 151227197 and ends at 151239954 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
C20orf27 (20p13) / PSMD4 (1q21.3)IQGAP1 (15q26.1) / PSMD4 (1q21.3)RPS9 (19q13.42) / PSMD4 (1q21.3)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)PSMD4   9561
Cards
Entrez_Gene (NCBI)PSMD4  5710  proteasome 26S subunit, non-ATPase 4
AliasesAF; AF-1; ASF; MCB1; 
Rpn10; S5A; pUB-R5
GeneCards (Weizmann)PSMD4
Ensembl hg19 (Hinxton)ENSG00000159352 [Gene_View]  chr1:151227197-151239954 [Contig_View]  PSMD4 [Vega]
Ensembl hg38 (Hinxton)ENSG00000159352 [Gene_View]  chr1:151227197-151239954 [Contig_View]  PSMD4 [Vega]
ICGC DataPortalENSG00000159352
TCGA cBioPortalPSMD4
AceView (NCBI)PSMD4
Genatlas (Paris)PSMD4
WikiGenes5710
SOURCE (Princeton)PSMD4
Genetics Home Reference (NIH)PSMD4
Genomic and cartography
GoldenPath hg19 (UCSC)PSMD4  -     chr1:151227197-151239954 +  1q21.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PSMD4  -     1q21.3   [Description]    (hg38-Dec_2013)
EnsemblPSMD4 - 1q21.3 [CytoView hg19]  PSMD4 - 1q21.3 [CytoView hg38]
Mapping of homologs : NCBIPSMD4 [Mapview hg19]  PSMD4 [Mapview hg38]
OMIM601648   
Gene and transcription
Genbank (Entrez)AB033605 BC002365 BC072008 JF432522 U24704
RefSeq transcript (Entrez)NM_002810 NM_153822
RefSeq genomic (Entrez)NC_000001 NC_018912 NG_029700 NT_004487 NW_004929293
Consensus coding sequences : CCDS (NCBI)PSMD4
Cluster EST : UnigeneHs.505059 [ NCBI ]
CGAP (NCI)Hs.505059
Alternative Splicing GalleryENSG00000159352
Gene ExpressionPSMD4 [ NCBI-GEO ]   PSMD4 [ EBI - ARRAY_EXPRESS ]   PSMD4 [ SEEK ]   PSMD4 [ MEM ]
Gene Expression Viewer (FireBrowse)PSMD4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5710
GTEX Portal (Tissue expression)PSMD4
Protein : pattern, domain, 3D structure
UniProt/SwissProtP55036   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP55036  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP55036
Splice isoforms : SwissVarP55036
PhosPhoSitePlusP55036
Domaine pattern : Prosite (Expaxy)UIM (PS50330)    VWFA (PS50234)   
Domains : Interpro (EBI)Proteasome_su_Rpn10    UIM_dom    VWF_A   
Domain families : Pfam (Sanger)UIM (PF02809)    VWA_2 (PF13519)   
Domain families : Pfam (NCBI)pfam02809    pfam13519   
Domain families : Smart (EMBL)UIM (SM00726)  VWA (SM00327)  
Conserved Domain (NCBI)PSMD4
DMDM Disease mutations5710
Blocks (Seattle)PSMD4
PDB (SRS)1P9C    1P9D    1UEL    1YX4    1YX5    1YX6    2KDE    2KDF   
PDB (PDBSum)1P9C    1P9D    1UEL    1YX4    1YX5    1YX6    2KDE    2KDF   
PDB (IMB)1P9C    1P9D    1UEL    1YX4    1YX5    1YX6    2KDE    2KDF   
PDB (RSDB)1P9C    1P9D    1UEL    1YX4    1YX5    1YX6    2KDE    2KDF   
Structural Biology KnowledgeBase1P9C    1P9D    1UEL    1YX4    1YX5    1YX6    2KDE    2KDF   
SCOP (Structural Classification of Proteins)1P9C    1P9D    1UEL    1YX4    1YX5    1YX6    2KDE    2KDF   
CATH (Classification of proteins structures)1P9C    1P9D    1UEL    1YX4    1YX5    1YX6    2KDE    2KDF   
SuperfamilyP55036
Human Protein AtlasENSG00000159352
Peptide AtlasP55036
HPRD03386
IPIIPI00022694   IPI00853609   IPI00853415   IPI00216247   IPI00853509   IPI00916906   
Protein Interaction databases
DIP (DOE-UCLA)P55036
IntAct (EBI)P55036
FunCoupENSG00000159352
BioGRIDPSMD4
STRING (EMBL)PSMD4
ZODIACPSMD4
Ontologies - Pathways
QuickGOP55036
Ontology : AmiGOMAPK cascade  protein polyubiquitination  proteasome complex  stimulatory C-type lectin receptor signaling pathway  antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent  protein binding  nucleus  nucleoplasm  nucleoplasm  cytoplasm  cytosol  cytosol  regulation of cellular amino acid metabolic process  transcription factor binding  proteasome regulatory particle, base subcomplex  proteasome accessory complex  anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process  polyubiquitin binding  tumor necrosis factor-mediated signaling pathway  NIK/NF-kappaB signaling  Fc-epsilon receptor signaling pathway  identical protein binding  proteasome-mediated ubiquitin-dependent protein catabolic process  proteasome-mediated ubiquitin-dependent protein catabolic process  proteasome assembly  regulation of mRNA stability  poly(A) RNA binding  T cell receptor signaling pathway  negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle  positive regulation of ubiquitin-protein ligase activity involved in regulation of mitotic cell cycle transition  Wnt signaling pathway, planar cell polarity pathway  negative regulation of canonical Wnt signaling pathway  positive regulation of canonical Wnt signaling pathway  
Ontology : EGO-EBIMAPK cascade  protein polyubiquitination  proteasome complex  stimulatory C-type lectin receptor signaling pathway  antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent  protein binding  nucleus  nucleoplasm  nucleoplasm  cytoplasm  cytosol  cytosol  regulation of cellular amino acid metabolic process  transcription factor binding  proteasome regulatory particle, base subcomplex  proteasome accessory complex  anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process  polyubiquitin binding  tumor necrosis factor-mediated signaling pathway  NIK/NF-kappaB signaling  Fc-epsilon receptor signaling pathway  identical protein binding  proteasome-mediated ubiquitin-dependent protein catabolic process  proteasome-mediated ubiquitin-dependent protein catabolic process  proteasome assembly  regulation of mRNA stability  poly(A) RNA binding  T cell receptor signaling pathway  negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle  positive regulation of ubiquitin-protein ligase activity involved in regulation of mitotic cell cycle transition  Wnt signaling pathway, planar cell polarity pathway  negative regulation of canonical Wnt signaling pathway  positive regulation of canonical Wnt signaling pathway  
Pathways : KEGGProteasome    Epstein-Barr virus infection   
NDEx NetworkPSMD4
Atlas of Cancer Signalling NetworkPSMD4
Wikipedia pathwaysPSMD4
Orthology - Evolution
OrthoDB5710
GeneTree (enSembl)ENSG00000159352
Phylogenetic Trees/Animal Genes : TreeFamPSMD4
HOVERGENP55036
HOGENOMP55036
Homologs : HomoloGenePSMD4
Homology/Alignments : Family Browser (UCSC)PSMD4
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPSMD4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PSMD4
dbVarPSMD4
ClinVarPSMD4
1000_GenomesPSMD4 
Exome Variant ServerPSMD4
ExAC (Exome Aggregation Consortium)PSMD4 (select the gene name)
Genetic variants : HAPMAP5710
Genomic Variants (DGV)PSMD4 [DGVbeta]
DECIPHER (Syndromes)1:151227197-151239954  ENSG00000159352
CONAN: Copy Number AnalysisPSMD4 
Mutations
ICGC Data PortalPSMD4 
TCGA Data PortalPSMD4 
Broad Tumor PortalPSMD4
OASIS PortalPSMD4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPSMD4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPSMD4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PSMD4
DgiDB (Drug Gene Interaction Database)PSMD4
DoCM (Curated mutations)PSMD4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PSMD4 (select a term)
intoGenPSMD4
Cancer3DPSMD4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601648   
Orphanet
MedgenPSMD4
Genetic Testing Registry PSMD4
NextProtP55036 [Medical]
TSGene5710
GENETestsPSMD4
Huge Navigator PSMD4 [HugePedia]
snp3D : Map Gene to Disease5710
BioCentury BCIQPSMD4
ClinGenPSMD4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5710
Chemical/Pharm GKB GenePA33907
Clinical trialPSMD4
Miscellaneous
canSAR (ICR)PSMD4 (select the gene name)
Probes
Litterature
PubMed185 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePSMD4
EVEXPSMD4
GoPubMedPSMD4
iHOPPSMD4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Mar 30 15:16:03 CEST 2017

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.