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VPS4A (vacuolar protein sorting 4 homolog A)

Identity

Alias_namesvacuolar protein sorting 4A (yeast homolog)
vacuolar protein sorting 4A (yeast)
vacuolar protein sorting 4 homolog A (S. cerevisiae)
Alias_symbol (synonym)VPS4
VPS4-1
FLJ22197
SKD2
SKD1
SKD1A
Other alias
HGNC (Hugo) VPS4A
LocusID (NCBI) 27183
Atlas_Id 54768
Location 16q22.1  [Link to chromosome band 16q22]
Location_base_pair Starts at 69311384 and ends at 69325043 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
NFAT5 (16q22.1) / VPS4A (16q22.1)RASD1 (17p11.2) / VPS4A (16q22.1)SNTB2 (16q22.1) / VPS4A (16q22.1)
VPS4A (16q22.1) / KLK3 (19q13.33)VPS4A (16q22.1) / LGMN (14q32.12)VPS4A (16q22.1) / VPS4A (16q22.1)
RASD1 17p11.2 / VPS4A 16q22.1

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)VPS4A   13488
Cards
Entrez_Gene (NCBI)VPS4A  27183  vacuolar protein sorting 4 homolog A
AliasesSKD1; SKD1A; SKD2; VPS4; 
VPS4-1
GeneCards (Weizmann)VPS4A
Ensembl hg19 (Hinxton)ENSG00000132612 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000132612 [Gene_View]  chr16:69311384-69325043 [Contig_View]  VPS4A [Vega]
ICGC DataPortalENSG00000132612
TCGA cBioPortalVPS4A
AceView (NCBI)VPS4A
Genatlas (Paris)VPS4A
WikiGenes27183
SOURCE (Princeton)VPS4A
Genetics Home Reference (NIH)VPS4A
Genomic and cartography
GoldenPath hg38 (UCSC)VPS4A  -     chr16:69311384-69325043 +  16q22.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VPS4A  -     16q22.1   [Description]    (hg19-Feb_2009)
EnsemblVPS4A - 16q22.1 [CytoView hg19]  VPS4A - 16q22.1 [CytoView hg38]
Mapping of homologs : NCBIVPS4A [Mapview hg19]  VPS4A [Mapview hg38]
OMIM609982   
Gene and transcription
Genbank (Entrez)AF112215 AF132747 AF155740 AF159063 AF255952
RefSeq transcript (Entrez)NM_013245
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VPS4A
Cluster EST : UnigeneHs.128420 [ NCBI ]
CGAP (NCI)Hs.128420
Alternative Splicing GalleryENSG00000132612
Gene ExpressionVPS4A [ NCBI-GEO ]   VPS4A [ EBI - ARRAY_EXPRESS ]   VPS4A [ SEEK ]   VPS4A [ MEM ]
Gene Expression Viewer (FireBrowse)VPS4A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)27183
GTEX Portal (Tissue expression)VPS4A
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UN37   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UN37  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UN37
Splice isoforms : SwissVarQ9UN37
Catalytic activity : Enzyme3.6.4.6 [ Enzyme-Expasy ]   3.6.4.63.6.4.6 [ IntEnz-EBI ]   3.6.4.6 [ BRENDA ]   3.6.4.6 [ KEGG ]   
PhosPhoSitePlusQ9UN37
Domaine pattern : Prosite (Expaxy)AAA (PS00674)   
Domains : Interpro (EBI)AAA+_ATPase    ATPase_AAA_core    ATPase_AAA_CS    MIT    P-loop_NTPase    Vps4_C   
Domain families : Pfam (Sanger)AAA (PF00004)    MIT (PF04212)    Vps4_C (PF09336)   
Domain families : Pfam (NCBI)pfam00004    pfam04212    pfam09336   
Domain families : Smart (EMBL)AAA (SM00382)  MIT (SM00745)  
Conserved Domain (NCBI)VPS4A
DMDM Disease mutations27183
Blocks (Seattle)VPS4A
PDB (SRS)1YXR    2JQ9    2K3W   
PDB (PDBSum)1YXR    2JQ9    2K3W   
PDB (IMB)1YXR    2JQ9    2K3W   
PDB (RSDB)1YXR    2JQ9    2K3W   
Structural Biology KnowledgeBase1YXR    2JQ9    2K3W   
SCOP (Structural Classification of Proteins)1YXR    2JQ9    2K3W   
CATH (Classification of proteins structures)1YXR    2JQ9    2K3W   
SuperfamilyQ9UN37
Human Protein AtlasENSG00000132612
Peptide AtlasQ9UN37
HPRD11676
IPIIPI00411356   
Protein Interaction databases
DIP (DOE-UCLA)Q9UN37
IntAct (EBI)Q9UN37
FunCoupENSG00000132612
BioGRIDVPS4A
STRING (EMBL)VPS4A
ZODIACVPS4A
Ontologies - Pathways
QuickGOQ9UN37
Ontology : AmiGOESCRT III complex  cell separation after cytokinesis  spindle pole  protein binding  ATP binding  nucleus  cytoplasm  lysosome  endosome  early endosome  late endosome  vacuolar membrane  centrosome  cytosol  cytosol  plasma membrane  membrane budding  nucleus organization  vacuole organization  mitotic metaphase plate congression  protein C-terminus binding  microtubule-severing ATPase activity  abscission  protein transport  vesicle-mediated transport  endosomal transport  endosomal transport  macroautophagy  ATPase activity  viral life cycle  viral release from host cell  protein domain specific binding  midbody  cytoplasmic microtubule organization  late endosome membrane  intracellular cholesterol transport  negative regulation of cytokinesis  regulation of protein localization  endosomal vesicle fusion  multivesicular body assembly  multivesicular body assembly  viral budding via host ESCRT complex  ATPase activity, coupled  ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  perinuclear region of cytoplasm  cell division  late endosomal microautophagy  extracellular exosome  vesicle uncoating  Flemming body  ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway  positive regulation of viral release from host cell  regulation of protein localization to plasma membrane  positive regulation of exosomal secretion  positive regulation of viral budding via host ESCRT complex  positive regulation of viral life cycle  ESCRT complex disassembly  ESCRT III complex disassembly  
Ontology : EGO-EBIESCRT III complex  cell separation after cytokinesis  spindle pole  protein binding  ATP binding  nucleus  cytoplasm  lysosome  endosome  early endosome  late endosome  vacuolar membrane  centrosome  cytosol  cytosol  plasma membrane  membrane budding  nucleus organization  vacuole organization  mitotic metaphase plate congression  protein C-terminus binding  microtubule-severing ATPase activity  abscission  protein transport  vesicle-mediated transport  endosomal transport  endosomal transport  macroautophagy  ATPase activity  viral life cycle  viral release from host cell  protein domain specific binding  midbody  cytoplasmic microtubule organization  late endosome membrane  intracellular cholesterol transport  negative regulation of cytokinesis  regulation of protein localization  endosomal vesicle fusion  multivesicular body assembly  multivesicular body assembly  viral budding via host ESCRT complex  ATPase activity, coupled  ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  perinuclear region of cytoplasm  cell division  late endosomal microautophagy  extracellular exosome  vesicle uncoating  Flemming body  ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway  positive regulation of viral release from host cell  regulation of protein localization to plasma membrane  positive regulation of exosomal secretion  positive regulation of viral budding via host ESCRT complex  positive regulation of viral life cycle  ESCRT complex disassembly  ESCRT III complex disassembly  
Pathways : KEGGEndocytosis   
NDEx NetworkVPS4A
Atlas of Cancer Signalling NetworkVPS4A
Wikipedia pathwaysVPS4A
Orthology - Evolution
OrthoDB27183
GeneTree (enSembl)ENSG00000132612
Phylogenetic Trees/Animal Genes : TreeFamVPS4A
HOVERGENQ9UN37
HOGENOMQ9UN37
Homologs : HomoloGeneVPS4A
Homology/Alignments : Family Browser (UCSC)VPS4A
Gene fusions - Rearrangements
Fusion : MitelmanRASD1/VPS4A [17p11.2/16q22.1]  [t(16;17)(q22;p11)]  
Fusion : MitelmanSNTB2/VPS4A [16q22.1/16q22.1]  [t(16;16)(q22;q22)]  
Fusion: TCGARASD1 17p11.2 VPS4A 16q22.1 PRAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVPS4A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VPS4A
dbVarVPS4A
ClinVarVPS4A
1000_GenomesVPS4A 
Exome Variant ServerVPS4A
ExAC (Exome Aggregation Consortium)VPS4A (select the gene name)
Genetic variants : HAPMAP27183
Genomic Variants (DGV)VPS4A [DGVbeta]
DECIPHERVPS4A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVPS4A 
Mutations
ICGC Data PortalVPS4A 
TCGA Data PortalVPS4A 
Broad Tumor PortalVPS4A
OASIS PortalVPS4A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVPS4A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVPS4A
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch VPS4A
DgiDB (Drug Gene Interaction Database)VPS4A
DoCM (Curated mutations)VPS4A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VPS4A (select a term)
intoGenVPS4A
Cancer3DVPS4A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609982   
Orphanet
MedgenVPS4A
Genetic Testing Registry VPS4A
NextProtQ9UN37 [Medical]
TSGene27183
GENETestsVPS4A
Target ValidationVPS4A
Huge Navigator VPS4A [HugePedia]
snp3D : Map Gene to Disease27183
BioCentury BCIQVPS4A
ClinGenVPS4A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD27183
Chemical/Pharm GKB GenePA38362
Clinical trialVPS4A
Miscellaneous
canSAR (ICR)VPS4A (select the gene name)
Probes
Litterature
PubMed90 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVPS4A
EVEXVPS4A
GoPubMedVPS4A
iHOPVPS4A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 14:11:34 CEST 2017

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