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Aliases for SPTSSB Gene

Aliases for SPTSSB Gene

  • Serine Palmitoyltransferase Small Subunit B 2 3 5
  • Small Subunit Of Serine Palmitoyltransferase B 2 3 4
  • Androgen Down Regulated In Mouse Prostate 2 3
  • C3orf57 3 4
  • SSSPTB 3 4
  • ADMP 3 4
  • Likely Ortholog Of Androgen Down Regulated Gene Expressed In Mouse Prostate 3
  • Serine Palmitoyltransferase, Small Subunit B 2
  • Chromosome 3 Open Reading Frame 57 2
  • Protein ADMP 4

External Ids for SPTSSB Gene

Previous HGNC Symbols for SPTSSB Gene

  • C3orf57

Previous GeneCards Identifiers for SPTSSB Gene

  • GC03M161063

Summaries for SPTSSB Gene

Entrez Gene Summary for SPTSSB Gene

  • Serine palmitoyltransferase (SPT; EC 2.3.1.50) catalyzes the first committed and rate-limiting step in sphingolipid biosynthesis. SSSPTB is a small SPT subunit that stimulates SPT activity and confers acyl-CoA preference to the SPT catalytic heterodimer of SPTLC1 (MIM 605712) and either SPTLC2 (MIM 605713) or SPTLC3 (MIM 611120) (Han et al., 2009 [PubMed 19416851]).[supplied by OMIM, Nov 2010]

GeneCards Summary for SPTSSB Gene

SPTSSB (Serine Palmitoyltransferase Small Subunit B) is a Protein Coding gene. Among its related pathways are Metabolism and Sphingolipid metabolism. GO annotations related to this gene include serine C-palmitoyltransferase activity. An important paralog of this gene is SPTSSA.

UniProtKB/Swiss-Prot for SPTSSB Gene

  • Stimulates the activity of serine palmitoyltransferase (SPT). The composition of the serine palmitoyltransferase (SPT) complex determines the substrate preference, complexes with this subunit showing a clear preference for longer acyl-CoAs. The SPTLC1-SPTLC2-SPTSSB complex shows a strong preference for C18-CoA substrate, while the SPTLC1-SPTLC3-SPTSSB isozyme displays an ability to use a broader range of acyl-CoAs, without apparent preference. May play a role in signal transduction.

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

Genomics for SPTSSB Gene

Regulatory Elements for SPTSSB Gene

Enhancers for SPTSSB 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
GH03F161418 1.6 FANTOM5 Ensembl ENCODE 33.4 -47.2 -47212 3.1 PKNOX1 ATF1 MLX ARID4B SIN3A FEZF1 ETS1 YY1 ZNF207 FOS SPTSSB LINC02067 NMD3
GH03F161338 1 ENCODE 45.7 +33.4 33377 1.4 PKNOX1 ARID4B FEZF1 FOS ZHX2 PPARG KAT8 MBD2 MIER3 RCOR2 SPTSSB PSMC1P7 EEF1GP4
GH03F161348 1.2 Ensembl ENCODE 36.8 +23.2 23153 2.5 INSM2 ZEB1 RFX5 ZNF366 RCOR1 FOS ZNF362 SP3 CEBPB USF2 SPTSSB LINC02067 PSMC1P7 EEF1GP4 B3GALNT1
GH03F161413 1.1 Ensembl ENCODE 32.1 -41.8 -41813 4.3 INSM2 FEZF1 BRCA1 RAD21 RFX5 ZNF366 FOS CEBPB ZEB2 ZNF843 SPTSSB B3GALNT1 NMD3 LINC02067 PSMC1P7
GH03F161265 1.1 Ensembl ENCODE 31.2 +105.8 105766 3.9 PKNOX1 RARA YY1 ZNF366 SCRT2 FOS ZNF362 HCFC1 CEBPB USF2 SPTSSB PSMC1P7 LINC02067 LOC105374187 ENSG00000271052
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SPTSSB on UCSC Golden Path with GeneCards custom track

Promoters for SPTSSB Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001378307 738 1601 HDGF PKNOX1 SIN3A ZNF2 YY1 GLIS2 ELK1 ZNF207 FOS SP3

Genomic Location for SPTSSB Gene

Chromosome:
3
Start:
161,344,792 bp from pter
End:
161,372,938 bp from pter
Size:
28,147 bases
Orientation:
Minus strand

Genomic View for SPTSSB Gene

Genes around SPTSSB on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SPTSSB Gene

Proteins for SPTSSB Gene

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

    Protein Symbol:
    Q8NFR3-SPTSB_HUMAN
    Recommended name:
    Serine palmitoyltransferase small subunit B
    Protein Accession:
    Q8NFR3
    Secondary Accessions:
    • B2R5D3
    • D3DNM8
    • Q0P5S6

    Protein attributes for SPTSSB Gene

    Size:
    76 amino acids
    Molecular mass:
    9198 Da
    Quaternary structure:
    • Interacts with SPTLC1; the interaction is direct. Component of the serine palmitoyltransferase (SPT) complex, composed of SPTLC1, either SPTLC2 or SPTLC3, and either SPTSSA or SPTSSB.

neXtProt entry for SPTSSB Gene

Post-translational modifications for SPTSSB Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SPTSSB Gene

No data available for DME Specific Peptides for SPTSSB Gene

Domains & Families for SPTSSB Gene

Protein Domains for SPTSSB Gene

Suggested Antigen Peptide Sequences for SPTSSB Gene

Graphical View of Domain Structure for InterPro Entry

Q8NFR3

UniProtKB/Swiss-Prot:

SPTSB_HUMAN :
  • Belongs to the SPTSS family. SPTSSB subfamily.
Family:
  • Belongs to the SPTSS family. SPTSSB subfamily.
genes like me logo Genes that share domains with SPTSSB: view

No data available for Gene Families for SPTSSB Gene

Function for SPTSSB Gene

Molecular function for SPTSSB Gene

UniProtKB/Swiss-Prot Function:
Stimulates the activity of serine palmitoyltransferase (SPT). The composition of the serine palmitoyltransferase (SPT) complex determines the substrate preference, complexes with this subunit showing a clear preference for longer acyl-CoAs. The SPTLC1-SPTLC2-SPTSSB complex shows a strong preference for C18-CoA substrate, while the SPTLC1-SPTLC3-SPTSSB isozyme displays an ability to use a broader range of acyl-CoAs, without apparent preference. May play a role in signal transduction.
UniProtKB/Swiss-Prot Induction:
Expression is suppressed by androgens in the androgen-sensitive LNCaP cell line.

Gene Ontology (GO) - Molecular Function for SPTSSB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004758 contributes_to serine C-palmitoyltransferase activity IDA 19416851
GO:0005515 protein binding IPI 19416851
genes like me logo Genes that share ontologies with SPTSSB: view

Phenotypes for SPTSSB Gene

genes like me logo Genes that share phenotypes with SPTSSB: view

Animal Models for SPTSSB Gene

MGI Knock Outs for SPTSSB:

Animal Model Products

miRNA for SPTSSB Gene

Inhibitory RNA Products

Flow Cytometry Products

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

Localization for SPTSSB Gene

Subcellular locations from UniProtKB/Swiss-Prot for SPTSSB Gene

Endoplasmic reticulum membrane; Multi-pass membrane protein.

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 SPTSSB gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 2
cytosol 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
nucleus 1

Gene Ontology (GO) - Cellular Components for SPTSSB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0017059 serine C-palmitoyltransferase complex IDA 19416851
genes like me logo Genes that share ontologies with SPTSSB: view

Pathways & Interactions for SPTSSB Gene

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

Pathways by source for SPTSSB Gene

UniProtKB/Swiss-Prot Q8NFR3-SPTSB_HUMAN

  • Pathway: Lipid metabolism; sphingolipid metabolism.

Gene Ontology (GO) - Biological Process for SPTSSB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006629 lipid metabolic process IEA --
GO:0006665 sphingolipid metabolic process IEA --
GO:0007029 endoplasmic reticulum organization IEA --
GO:0030148 sphingolipid biosynthetic process TAS 19416851
GO:0046513 ceramide biosynthetic process IEA --
genes like me logo Genes that share ontologies with SPTSSB: view

No data available for SIGNOR curated interactions for SPTSSB Gene

Transcripts for SPTSSB Gene

Unigene Clusters for SPTSSB Gene

Serine palmitoyltransferase, small subunit B:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for SPTSSB Gene

GeneLoc Exon Structure for
SPTSSB
ECgene alternative splicing isoforms for
SPTSSB

Expression for SPTSSB Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (x7.4), Skin - Sun Exposed (Lower leg) (x7.2), and Bladder (x6.9).

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



NURSA nuclear receptor signaling pathways regulating expression of SPTSSB Gene:

SPTSSB

SOURCE GeneReport for Unigene cluster for SPTSSB Gene:

Hs.369104

mRNA Expression by UniProt/SwissProt for SPTSSB Gene:

Q8NFR3-SPTSB_HUMAN
Tissue specificity: Expression is seen predominantly in the prostate epithelium with weaker expression in the fibroblasts and endothelial cells.
genes like me logo Genes that share expression patterns with SPTSSB: view

No data available for Protein differential expression in normal tissues and Protein tissue co-expression partners for SPTSSB Gene

Orthologs for SPTSSB Gene

This gene was present in the common ancestor of chordates.

Orthologs for SPTSSB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SPTSSB 34 35
  • 100 (n)
dog
(Canis familiaris)
Mammalia SPTSSB 34 35
  • 90.79 (n)
cow
(Bos Taurus)
Mammalia SPTSSB 34 35
  • 90.35 (n)
rat
(Rattus norvegicus)
Mammalia Sptssb 34
  • 88.16 (n)
mouse
(Mus musculus)
Mammalia Sptssb 34 16 35
  • 85.53 (n)
oppossum
(Monodelphis domestica)
Mammalia SPTSSB 35
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves SPTSSB 34 35
  • 71.11 (n)
lizard
(Anolis carolinensis)
Reptilia SPTSSB 35
  • 59 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sptssb 34
  • 67.11 (n)
zebrafish
(Danio rerio)
Actinopterygii sptssb 34 35
  • 63.29 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3848 35
  • 15 (a)
OneToMany
Species where no ortholog for SPTSSB 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)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for SPTSSB Gene

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

Paralogs for SPTSSB Gene

Paralogs for SPTSSB Gene

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

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

Variants for SPTSSB Gene

Sequence variations from dbSNP and Humsavar for SPTSSB Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs10551450 -- 161,348,252(+) CCTGG(-/CAAAA)CAAAA intron-variant
rs111598678 -- 161,363,391(+) ATCAG(A/G)TAAAG intron-variant
rs111735640 -- 161,356,760(+) TGACA(A/G)TAGTA intron-variant
rs111746655 -- 161,352,429(+) AGACC(C/T)CTCCC intron-variant
rs111883766 -- 161,359,897(+) CATCT(C/G)CAAAA intron-variant

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

Variant ID Type Subtype PubMed ID
esv2726119 CNV deletion 23290073
esv3598407 CNV gain 21293372
nsv4091 CNV deletion 18451855
nsv592128 CNV loss 21841781
nsv829770 CNV gain 17160897
nsv829772 CNV gain+loss 17160897

Variation tolerance for SPTSSB Gene

Residual Variation Intolerance Score: 58.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.10; 2.29% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SPTSSB Gene

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

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

Disorders for SPTSSB Gene

Relevant External Links for SPTSSB

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SPTSSB

No disorders were found for SPTSSB Gene.

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

Publications for SPTSSB Gene

  1. Identification of small subunits of mammalian serine palmitoyltransferase that confer distinct acyl-CoA substrate specificities. (PMID: 19416851) Han G. … Dunn T.M. (Proc. Natl. Acad. Sci. U.S.A. 2009) 2 3 4 64
  2. Molecular cloning and characterization of a novel androgen repressible gene expressed in the prostate epithelium. (PMID: 15777716) Singh J. … Dong Q. (Gene 2005) 2 3 4 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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 4 64
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for SPTSSB Gene

Sources for SPTSSB Gene

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