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Aliases for VPS26B Gene

Aliases for VPS26B Gene

  • VPS26, Retromer Complex Component B 2 3 5
  • Vesicle Protein Sorting 26B 3 4
  • Vacuolar Protein Sorting 26 Homolog B (S. Pombe) 2
  • Vacuolar Protein Sorting-Associated Protein 26B 3
  • Pep8b 3

External Ids for VPS26B Gene

Previous GeneCards Identifiers for VPS26B Gene

  • GC11P133600
  • GC11P134094
  • GC11P130050

Summaries for VPS26B Gene

GeneCards Summary for VPS26B Gene

VPS26B (VPS26, Retromer Complex Component B) is a Protein Coding gene. Among its related pathways are Endocytosis. GO annotations related to this gene include protein transporter activity. An important paralog of this gene is VPS26A.

UniProtKB/Swiss-Prot for VPS26B Gene

  • Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. The recruitment of the CSC to the endosomal membrane involves RAB7A and SNX3. The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX3-retromer mediates the retrograde transport of WLS distinct from the SNX-BAR retromer pathway. The SNX27-retromer is believed to be involved in endosome-to-plasma membrane trafficking and recycling of a broad spectrum of cargo proteins. The CSC seems to act as recruitment hub for other proteins, such as the WASH complex and TBC1D5. May be involved in retrograde transport of SORT1 but not of IGF2R. Acts redundantly with VSP26A in SNX-27 mediated endocytic recycling of SLC2A1/GLUT1 (By similarity).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VPS26B Gene

Genomics for VPS26B Gene

Regulatory Elements for VPS26B Gene

Enhancers for VPS26B Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH11F134068 1.1 Ensembl ENCODE 9.9 -152.5 -152492 7.4 PKNOX1 KLF17 BMI1 ZNF2 SCRT2 ZNF391 EGR2 ZBTB2 REST ZNF623 NCAPD3 JAM3 ACAD8 IGSF9B LOC100533644 ENSG00000255348 VPS26B THYN1 GC11P134081
GH11F134139 0.8 Ensembl ENCODE 10.5 -84.7 -84674 1.2 CTCF ZNF654 SMC3 REST PRDM1 RAD21 TEAD3 JAM3 NCAPD3 LOC100533644 ENSG00000255348 VPS26B IGSF9B GLB1L3 THYN1 PIR32251 GC11P134146
GH11F134266 0.8 Ensembl ENCODE 10.4 +42.7 42672 2.2 MAX FOS WT1 ZNF18 ACAD8 VPS26B NCAPD3 GC11P134265 GLB1L3
GH11F134222 1.1 ENCODE 6.7 -0.1 -121 3.0 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ACAD8 JAM3 NCAPD3 GLB1L3 VPS26B GC11P134223
GH11F133520 0.6 ENCODE 4.6 -703.7 -703745 0.2 TFAP4 ATF3 HNF4G ZBTB33 ZNF644 RAD21 YY1 VPS26B OPCML GC11P133477
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around VPS26B on UCSC Golden Path with GeneCards custom track

Promoters for VPS26B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000571842 -5 3201 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2

Genomic Location for VPS26B Gene

Chromosome:
11
Start:
134,224,605 bp from pter
End:
134,247,792 bp from pter
Size:
23,188 bases
Orientation:
Plus strand

Genomic View for VPS26B Gene

Genes around VPS26B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VPS26B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VPS26B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VPS26B Gene

Proteins for VPS26B Gene

  • Protein details for VPS26B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q4G0F5-VP26B_HUMAN
    Recommended name:
    Vacuolar protein sorting-associated protein 26B
    Protein Accession:
    Q4G0F5
    Secondary Accessions:
    • Q96A55

    Protein attributes for VPS26B Gene

    Size:
    336 amino acids
    Molecular mass:
    39155 Da
    Quaternary structure:
    • Component of the heterotrimeric retromer cargo-selective complex (CSC), also described as vacuolar protein sorting VPS subcomplex (VPS,) formed by VPS26 (VPS26A or VPS26B), VPS29 and VPS35. The CSC has a highly elongated structure with VPS26 and VPS29 binding independently at opposite distal ends of VPS35 as central platform. The CSC is believed to associate with variable sorting nexins to form functionally distinct retromer complex variants. The originally described retromer complex (also called SNX-BAR retromer) is a pentamer containing the CSC and a heterodimeric membrane-deforming subcomplex formed between SNX1 or SNX2 and SNX5 or SNX6 (also called SNX-BAR subcomplex); the respective CSC and SNX-BAR subcomplexes associate with low affinity. The CSC associates with SNX3 to form a SNX3-retromer complex. The CSC associates with SNX27, the WASH complex and the SNX-BAR subcomplex to form the SNX27-retromer complex. Interacts with VPS29, VPS35, TBC1D5, GOLPH3, SNX27 (By similarity).

neXtProt entry for VPS26B Gene

Post-translational modifications for VPS26B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VPS26B Gene

No data available for DME Specific Peptides for VPS26B Gene

Domains & Families for VPS26B Gene

Protein Domains for VPS26B Gene

Suggested Antigen Peptide Sequences for VPS26B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q4G0F5

UniProtKB/Swiss-Prot:

VP26B_HUMAN :
  • Belongs to the VPS26 family.
Family:
  • Belongs to the VPS26 family.
genes like me logo Genes that share domains with VPS26B: view

No data available for Gene Families for VPS26B Gene

Function for VPS26B Gene

Molecular function for VPS26B Gene

UniProtKB/Swiss-Prot Function:
Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. The recruitment of the CSC to the endosomal membrane involves RAB7A and SNX3. The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX3-retromer mediates the retrograde transport of WLS distinct from the SNX-BAR retromer pathway. The SNX27-retromer is believed to be involved in endosome-to-plasma membrane trafficking and recycling of a broad spectrum of cargo proteins. The CSC seems to act as recruitment hub for other proteins, such as the WASH complex and TBC1D5. May be involved in retrograde transport of SORT1 but not of IGF2R. Acts redundantly with VSP26A in SNX-27 mediated endocytic recycling of SLC2A1/GLUT1 (By similarity).

Gene Ontology (GO) - Molecular Function for VPS26B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008565 protein transporter activity IBA --
genes like me logo Genes that share ontologies with VPS26B: view
genes like me logo Genes that share phenotypes with VPS26B: view

Animal Models for VPS26B Gene

MGI Knock Outs for VPS26B:

Animal Model Products

miRNA for VPS26B Gene

miRTarBase miRNAs that target VPS26B

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VPS26B Gene

Localization for VPS26B Gene

Subcellular locations from UniProtKB/Swiss-Prot for VPS26B Gene

Cytoplasm. Membrane; Peripheral membrane protein. Early endosome. Late endosome. Note=Localizes to early and late endosomal structures (By similarity). {ECO:0000250 UniProtKB:Q8C0E2}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for VPS26B gene
Compartment Confidence
cytosol 5
endosome 5
nucleus 2
cytoskeleton 1
mitochondrion 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for VPS26B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005768 endosome IEA,IBA --
GO:0005769 early endosome ISS --
GO:0005770 late endosome ISS --
GO:0005829 cytosol ISS 11102511
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with VPS26B: view

Pathways & Interactions for VPS26B Gene

SuperPathways for VPS26B Gene

SuperPathway Contained pathways
1 Endocytosis
genes like me logo Genes that share pathways with VPS26B: view

Pathways by source for VPS26B Gene

1 KEGG pathway for VPS26B Gene

Gene Ontology (GO) - Biological Process for VPS26B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0006886 intracellular protein transport IBA --
GO:0015031 protein transport IEA --
GO:0016241 regulation of macroautophagy TAS 26172538
GO:0042147 retrograde transport, endosome to Golgi NAS 26220253
genes like me logo Genes that share ontologies with VPS26B: view

No data available for SIGNOR curated interactions for VPS26B Gene

Transcripts for VPS26B Gene

Unigene Clusters for VPS26B Gene

Vacuolar protein sorting 26 homolog B (S. pombe):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for VPS26B Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8
SP1: - - -
SP2: -
SP3: - - - -
SP4:

Relevant External Links for VPS26B Gene

GeneLoc Exon Structure for
VPS26B
ECgene alternative splicing isoforms for
VPS26B

Expression for VPS26B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for VPS26B Gene

Protein differential expression in normal tissues from HIPED for VPS26B Gene

This gene is overexpressed in Frontal cortex (7.0) and Peripheral blood mononuclear cells (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for VPS26B Gene



Protein tissue co-expression partners for VPS26B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of VPS26B Gene:

VPS26B

SOURCE GeneReport for Unigene cluster for VPS26B Gene:

Hs.334684
genes like me logo Genes that share expression patterns with VPS26B: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for VPS26B Gene

Orthologs for VPS26B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VPS26B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VPS26B 34 35
  • 99.5 (n)
oppossum
(Monodelphis domestica)
Mammalia VPS26B 35
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia VPS26B 34 35
  • 93.07 (n)
mouse
(Mus musculus)
Mammalia Vps26b 34 16 35
  • 92.46 (n)
rat
(Rattus norvegicus)
Mammalia Vps26b 34
  • 91.77 (n)
cow
(Bos Taurus)
Mammalia VPS26B 34 35
  • 87.9 (n)
chicken
(Gallus gallus)
Aves VPS26B 34 35
  • 82.24 (n)
lizard
(Anolis carolinensis)
Reptilia VPS26B 35
  • 93 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia vps26b 34
  • 78.3 (n)
zebrafish
(Danio rerio)
Actinopterygii vps26bl 35
  • 90 (a)
OneToMany
vps26b 35
  • 85 (a)
OneToMany
Dr.4181 34
fruit fly
(Drosophila melanogaster)
Insecta Vps26 34 35
  • 70.82 (n)
worm
(Caenorhabditis elegans)
Secernentea vps-26 35
  • 49 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PEP8 35
  • 34 (a)
OneToMany
barley
(Hordeum vulgare)
Liliopsida Hv.2754 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2536 35
  • 63 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2076 34
Species where no ortholog for VPS26B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VPS26B Gene

ENSEMBL:
Gene Tree for VPS26B (if available)
TreeFam:
Gene Tree for VPS26B (if available)

Paralogs for VPS26B Gene

Paralogs for VPS26B Gene

(1) SIMAP similar genes for VPS26B Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for VPS26B Gene

genes like me logo Genes that share paralogs with VPS26B: view

Variants for VPS26B Gene

Sequence variations from dbSNP and Humsavar for VPS26B Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs10894788 -- 134,241,653(+) GCTCA(A/G)AGCAG intron-variant
rs111241118 -- 134,244,163(+) GTGCA(A/C)ATAGA intron-variant
rs111253809 -- 134,223,937(+) CAGGG(A/C/G/T)ACCGG nc-transcript-variant, upstream-variant-2KB, utr-variant-5-prime
rs111401005 -- 134,243,247(+) TGAGA(A/G)TGACA reference, missense
rs111713623 -- 134,242,199(+) TTTGC(A/T)GAGGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for VPS26B Gene

Variant ID Type Subtype PubMed ID
esv2745323 CNV deletion 23290073
esv3892114 CNV gain 25118596
nsv521581 CNV gain 19592680
nsv826147 CNV gain 20364138
nsv832299 CNV loss 17160897

Variation tolerance for VPS26B Gene

Residual Variation Intolerance Score: 14.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.31; 6.92% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VPS26B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
VPS26B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VPS26B Gene

Disorders for VPS26B Gene

Relevant External Links for VPS26B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VPS26B

No disorders were found for VPS26B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for VPS26B Gene

Publications for VPS26B Gene

  1. Vps26A and Vps26B subunits define distinct retromer complexes. (PMID: 21920005) Bugarcic A. … Teasdale R.D. (Traffic 2011) 2 3 64
  2. A novel mammalian retromer component, Vps26B. (PMID: 16190980) Kerr M.C. … Teasdale R.D. (Traffic 2005) 2 3 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3 64
  5. Vps26B-retromer negatively regulates plasma membrane resensitization of PAR-2. (PMID: 26113136) Bugarcic A. … Teasdale R.D. (Cell Biol. Int. 2015) 3 64

Products for VPS26B Gene

Sources for VPS26B Gene

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