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Aliases for SPSB4 Gene

Aliases for SPSB4 Gene

  • SplA/Ryanodine Receptor Domain And SOCS Box Containing 4 2 3 5
  • SSB-4 3 4
  • SSB4 3 4
  • SPRY Domain-Containing SOCS Box Protein SSB-4 3
  • SPRY Domain-Containing SOCS Box Protein 4 3

External Ids for SPSB4 Gene

Previous GeneCards Identifiers for SPSB4 Gene

  • GC03P142253
  • GC03P140770
  • GC03P138145

Summaries for SPSB4 Gene

GeneCards Summary for SPSB4 Gene

SPSB4 (SplA/Ryanodine Receptor Domain And SOCS Box Containing 4) is a Protein Coding gene. Among its related pathways are Innate Immune System and Class I MHC mediated antigen processing and presentation. An important paralog of this gene is SPSB1.

UniProtKB/Swiss-Prot for SPSB4 Gene

  • Probable substrate recognition component of a SCF-like ECS (Elongin BC-CUL2/5-SOCS-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

Additional gene information for SPSB4 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SPSB4 Gene

Genomics for SPSB4 Gene

GeneHancer (GH) Regulatory Elements for SPSB4 Gene

Promoters and enhancers for SPSB4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I141050 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 550.8 +1.2 1206 2.6 KLF17 ZNF76 ZNF2 ZNF335 GLIS2 ZNF398 REST ZEB2 ZNF341 ZBTB26 SPSB4 ENSG00000251270
GH03I141073 Promoter/Enhancer 1.5 Ensembl ENCODE dbSUPER 12.2 +25.0 25034 4.6 KLF1 LEF1 PKNOX1 ZBTB21 KLF17 ZIC2 ZFHX2 POLR2A ZNF600 TCF7L2 SPSB4 ENSG00000251270
GH03I141113 Enhancer 0.9 Ensembl ENCODE dbSUPER 11.7 +64.8 64767 3.8 MITF CTCF RAD51 USF1 ZNF143 USF2 CBFA2T2 SPSB4 ENSG00000251270
GH03I141192 Enhancer 0.9 ENCODE 10.9 +141.6 141649 0.2 SIN3A ZNF2 ZNF48 YY1 GLIS2 ZNF213 ARID2 ZNF143 ATF7 RUNX3 PXYLP1 SPSB4 PIR61633 ENSG00000251270
GH03I141012 Enhancer 0.8 Ensembl ENCODE 12.1 -37.8 -37795 2.5 CTCF PKNOX1 TRIM22 RAD21 RELA ZFHX2 KLF16 POLR2A SMC3 ZNF143 SPSB4 ENSG00000248773
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SPSB4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SPSB4 gene promoter:

Genomic Locations for SPSB4 Gene

Genomic Locations for SPSB4 Gene
chr3:141,050,795-141,148,611
(GRCh38/hg38)
Size:
97,817 bases
Orientation:
Plus strand
chr3:140,770,244-140,867,453
(GRCh37/hg19)

Genomic View for SPSB4 Gene

Genes around SPSB4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPSB4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPSB4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPSB4 Gene

Proteins for SPSB4 Gene

  • Protein details for SPSB4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96A44-SPSB4_HUMAN
    Recommended name:
    SPRY domain-containing SOCS box protein 4
    Protein Accession:
    Q96A44

    Protein attributes for SPSB4 Gene

    Size:
    273 amino acids
    Molecular mass:
    30179 Da
    Quaternary structure:
    • Probable component of the ECS(SPSB4) E3 ubiquitin-protein ligase complex which contains CUL5, RNF7/RBX2, Elongin BC complex and SPSB4 (PubMed:15601820). Interacts with CUL5; RNF7; ELOB and ELOC (PubMed:15601820). Interacts with MET (PubMed:15713673). Interacts (via B30.2/SPRY domain) with PAWR; this interaction occurs in association with the Elongin BC complex (PubMed:20561531).

    Three dimensional structures from OCA and Proteopedia for SPSB4 Gene

neXtProt entry for SPSB4 Gene

Post-translational modifications for SPSB4 Gene

No Post-translational modifications

Other Protein References for SPSB4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SPSB4 Gene

Domains & Families for SPSB4 Gene

Gene Families for SPSB4 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for SPSB4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96A44

UniProtKB/Swiss-Prot:

SPSB4_HUMAN :
  • The SOCS box domain mediates the interaction with the Elongin BC complex, an adapter module in different E3 ubiquitin ligase complexes.
  • Belongs to the SPSB family.
Domain:
  • The SOCS box domain mediates the interaction with the Elongin BC complex, an adapter module in different E3 ubiquitin ligase complexes.
Family:
  • Belongs to the SPSB family.
genes like me logo Genes that share domains with SPSB4: view

Function for SPSB4 Gene

Molecular function for SPSB4 Gene

UniProtKB/Swiss-Prot Function:
Probable substrate recognition component of a SCF-like ECS (Elongin BC-CUL2/5-SOCS-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

Phenotypes From GWAS Catalog for SPSB4 Gene

Gene Ontology (GO) - Molecular Function for SPSB4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 15601820
genes like me logo Genes that share ontologies with SPSB4: view
genes like me logo Genes that share phenotypes with SPSB4: view

Animal Model Products

Clone Products

  • Addgene plasmids for SPSB4

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SPSB4 Gene

Localization for SPSB4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SPSB4 Gene

Cytoplasm.

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 SPSB4 gene
Compartment Confidence
cytosol 5
nucleus 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SPSB4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with SPSB4: view

Pathways & Interactions for SPSB4 Gene

genes like me logo Genes that share pathways with SPSB4: view

UniProtKB/Swiss-Prot Q96A44-SPSB4_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for SPSB4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016567 protein ubiquitination IEA --
GO:0035556 intracellular signal transduction IEA --
GO:0043687 post-translational protein modification TAS --
genes like me logo Genes that share ontologies with SPSB4: view

No data available for SIGNOR curated interactions for SPSB4 Gene

Drugs & Compounds for SPSB4 Gene

No Compound Related Data Available

Transcripts for SPSB4 Gene

Unigene Clusters for SPSB4 Gene

SplA/ryanodine receptor domain and SOCS box containing 4:
Representative Sequences:

Clone Products

  • Addgene plasmids for SPSB4

Alternative Splicing Database (ASD) splice patterns (SP) for SPSB4 Gene

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

Relevant External Links for SPSB4 Gene

GeneLoc Exon Structure for
SPSB4
ECgene alternative splicing isoforms for
SPSB4

Expression for SPSB4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SPSB4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SPSB4 Gene

This gene is overexpressed in Pancreas (x11.5), Testis (x6.7), and Pituitary (x6.5).

NURSA nuclear receptor signaling pathways regulating expression of SPSB4 Gene:

SPSB4

SOURCE GeneReport for Unigene cluster for SPSB4 Gene:

Hs.655112

Evidence on tissue expression from TISSUES for SPSB4 Gene

  • Nervous system(4)
genes like me logo Genes that share expression patterns with SPSB4: view

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SPSB4 Gene

Orthologs for SPSB4 Gene

This gene was present in the common ancestor of animals.

Orthologs for SPSB4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SPSB4 33 34
  • 99.63 (n)
dog
(Canis familiaris)
Mammalia SPSB4 33 34
  • 93.41 (n)
cow
(Bos Taurus)
Mammalia SPSB4 33 34
  • 92.31 (n)
mouse
(Mus musculus)
Mammalia Spsb4 33 16 34
  • 88.03 (n)
rat
(Rattus norvegicus)
Mammalia Spsb4 33
  • 86.94 (n)
oppossum
(Monodelphis domestica)
Mammalia SPSB4 34
  • 85 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SPSB4 34
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves SPSB4 33 34
  • 71.31 (n)
lizard
(Anolis carolinensis)
Reptilia SPSB4 34
  • 82 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia spsb4 33
  • 69.35 (n)
zebrafish
(Danio rerio)
Actinopterygii spsb4a 33 34
  • 73.02 (n)
spsb4b 34
  • 67 (a)
OneToMany
nszf-e326 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010197 33
  • 65.2 (n)
fruit fly
(Drosophila melanogaster)
Insecta gus 33 34
  • 58.21 (n)
worm
(Caenorhabditis elegans)
Secernentea spsb-1 33 34
  • 57.83 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8004 34
  • 51 (a)
OneToMany
Species where no ortholog for SPSB4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • 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)
  • 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 SPSB4 Gene

ENSEMBL:
Gene Tree for SPSB4 (if available)
TreeFam:
Gene Tree for SPSB4 (if available)

Paralogs for SPSB4 Gene

Paralogs for SPSB4 Gene

genes like me logo Genes that share paralogs with SPSB4: view

Variants for SPSB4 Gene

Sequence variations from dbSNP and Humsavar for SPSB4 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000016357 -- 141,076,476(+) G/ intron_variant
rs1000062328 -- 141,142,517(+) C/T genic_downstream_transcript_variant, intron_variant
rs1000063032 -- 141,100,691(+) G/T genic_downstream_transcript_variant, intron_variant
rs1000104284 -- 141,129,121(+) C/A genic_downstream_transcript_variant, intron_variant
rs1000118042 -- 141,067,279(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SPSB4 Gene

Variant ID Type Subtype PubMed ID
esv22188 CNV loss 19812545
esv3562633 CNV deletion 23714750
esv3597970 CNV loss 21293372
nsv591889 CNV loss 21841781
nsv591890 CNV loss 21841781
nsv955357 CNV deletion 24416366

Variation tolerance for SPSB4 Gene

Gene Damage Index Score: 1.61; 30.91% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SPSB4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SPSB4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SPSB4 Gene

Disorders for SPSB4 Gene

Additional Disease Information for SPSB4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SPSB4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SPSB4 Gene

Publications for SPSB4 Gene

  1. The SPRY domain-containing SOCS box protein 1 (SSB-1) interacts with MET and enhances the hepatocyte growth factor-induced Erk-Elk-1-serum response element pathway. (PMID: 15713673) Wang D … Wu G (The Journal of biological chemistry 2005) 3 4 22 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. Structural basis for Par-4 recognition by the SPRY domain- and SOCS box-containing proteins SPSB1, SPSB2, and SPSB4. (PMID: 20561531) Filippakopoulos P … Bullock AN (Journal of molecular biology 2010) 3 4 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for SPSB4 Gene

  • Addgene plasmids for SPSB4

Sources for SPSB4 Gene

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