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Aliases for SNCB Gene

Aliases for SNCB Gene

  • Synuclein Beta 2 3 5
  • β-Synuclein 2
  • Beta-Synuclein 3

External Ids for SNCB Gene

Previous GeneCards Identifiers for SNCB Gene

  • GC05M176394
  • GC05M176866
  • GC05M175982
  • GC05M176028
  • GC05M175979
  • GC05M176047
  • GC05M170970

Summaries for SNCB Gene

Entrez Gene Summary for SNCB Gene

  • This gene encodes a member of a small family of proteins that inhibit phospholipase D2 and may function in neuronal plasticity. The encoded protein is abundant in lesions of patients with Alzheimer disease. A mutation in this gene was found in individuals with dementia with Lewy bodies. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]

GeneCards Summary for SNCB Gene

SNCB (Synuclein Beta) is a Protein Coding gene. Diseases associated with SNCB include Dementia, Lewy Body and Multiple System Atrophy. Among its related pathways are Neuroscience. GO annotations related to this gene include calcium ion binding and alpha-tubulin binding. An important paralog of this gene is SNCA.

UniProtKB/Swiss-Prot for SNCB Gene

  • Non-amyloid component of senile plaques found in Alzheimer disease. Could act as a regulator of SNCA aggregation process. Protects neurons from staurosporine and 6-hydroxy dopamine (6OHDA)-stimulated caspase activation in a p53/TP53-dependent manner. Contributes to restore the SNCA anti-apoptotic function abolished by 6OHDA. Not found in the Lewy bodies associated with Parkinson disease.

Gene Wiki entry for SNCB Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNCB Gene

Genomics for SNCB Gene

Regulatory Elements for SNCB Gene

Enhancers for SNCB 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
GH05G176596 1 Ensembl ENCODE 11.9 +33.4 33371 2.3 CTCF SUZ12 ZFP64 ZNF140 RBBP5 RAD21 ZNF101 ZNF697 POLR2A ZBTB11 EIF4E1B SNCB TSPAN17 RN7SL684P CDHR2 FAF2 MIR1271 ARL10 KIAA1191 PIR54069
GH05G176824 1 FANTOM5 ENCODE 6.6 -192.7 -192731 0.3 ZNF263 KLF1 ZNF687 USF1 BHLHE40 USF2 KLF17 ZNF394 RAD51 GABPB1 UNC5A HK3 SNCB EIF4E1B NSD1 GPRIN1 GC05M176812
GH05G176628 0.9 Ensembl 0.7 +0.9 896 2.3 PKNOX1 SIN3A GLIS2 EGR1 SCRT2 SP3 SP5 TSHZ1 ZNF623 ZFP69B TSPAN17 GPRIN1 SNCB MIR4281
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SNCB on UCSC Golden Path with GeneCards custom track

Genomic Location for SNCB Gene

Chromosome:
5
Start:
176,620,084 bp from pter
End:
176,630,556 bp from pter
Size:
10,473 bases
Orientation:
Minus strand

Genomic View for SNCB Gene

Genes around SNCB on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SNCB Gene

Proteins for SNCB Gene

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

    Protein Symbol:
    Q16143-SYUB_HUMAN
    Recommended name:
    Beta-synuclein
    Protein Accession:
    Q16143
    Secondary Accessions:
    • Q6IAX7

    Protein attributes for SNCB Gene

    Size:
    134 amino acids
    Molecular mass:
    14288 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SNCB Gene

Post-translational modifications for SNCB Gene

  • Phosphorylated. Phosphorylation by G-protein coupled receptor kinases (GRK) is more efficient than phosphorylation by CK1, CK2 and CaM-kinase II.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • R&D Systems Antibodies for SNCB (beta-Synuclein)
  • Cell Signaling Technology (CST) Antibodies for SNCB (SNCB)

No data available for DME Specific Peptides for SNCB Gene

Domains & Families for SNCB Gene

Protein Domains for SNCB Gene

Suggested Antigen Peptide Sequences for SNCB Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q16143

UniProtKB/Swiss-Prot:

SYUB_HUMAN :
  • Belongs to the synuclein family.
Family:
  • Belongs to the synuclein family.
genes like me logo Genes that share domains with SNCB: view

No data available for Gene Families for SNCB Gene

Function for SNCB Gene

Molecular function for SNCB Gene

GENATLAS Biochemistry:
beta synuclein,19kDa,homolog to bovine phosphoneuroprotein (PNP14),non A/beta component of Alzheimer amyloid precursor,beta,expressed in presynaptic nerve terminals in various areas of the brain,including substantia nigra but not the corpus callosum and the caudate nucleus,putatively involved in exocytosis of synaptic vesicles
UniProtKB/Swiss-Prot Function:
Non-amyloid component of senile plaques found in Alzheimer disease. Could act as a regulator of SNCA aggregation process. Protects neurons from staurosporine and 6-hydroxy dopamine (6OHDA)-stimulated caspase activation in a p53/TP53-dependent manner. Contributes to restore the SNCA anti-apoptotic function abolished by 6OHDA. Not found in the Lewy bodies associated with Parkinson disease.

Gene Ontology (GO) - Molecular Function for SNCB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004859 phospholipase inhibitor activity TAS 9806846
GO:0005509 calcium ion binding IDA 11312271
GO:0046914 transition metal ion binding IMP 25495902
GO:1903136 cuprous ion binding IMP 25495902
genes like me logo Genes that share ontologies with SNCB: view
genes like me logo Genes that share phenotypes with SNCB: view

Human Phenotype Ontology for SNCB Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for SNCB Gene

MGI Knock Outs for SNCB:

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for SNCB Gene

Localization for SNCB Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNCB 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 SNCB gene
Compartment Confidence
cytosol 4
mitochondrion 3
nucleus 2
golgi apparatus 2
extracellular 1
cytoskeleton 1
lysosome 1

Gene Ontology (GO) - Cellular Components for SNCB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005739 mitochondrion IEA --
GO:0005829 cytosol TAS --
GO:0016234 inclusion body IDA 17222866
GO:0045202 synapse IEA --
genes like me logo Genes that share ontologies with SNCB: view

Pathways & Interactions for SNCB Gene

SuperPathway Contained pathways
1 Neuroscience
genes like me logo Genes that share pathways with SNCB: view

Pathways by source for SNCB Gene

1 Cell Signaling Technology pathway for SNCB Gene

SIGNOR curated interactions for SNCB Gene

Is activated by:
Other effect:

Gene Ontology (GO) - Biological Process for SNCB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007268 chemical synaptic transmission IEA --
GO:0010038 response to metal ion TAS --
GO:0042417 dopamine metabolic process IEA --
GO:0043086 negative regulation of catalytic activity IEA --
GO:0043524 negative regulation of neuron apoptotic process IEA --
genes like me logo Genes that share ontologies with SNCB: view

Drugs & Compounds for SNCB Gene

(2) Drugs for SNCB Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(4) Additional Compounds for SNCB Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Fe2+
  • Armco iron
  • Carbonyl iron
  • FE
  • Ferrovac e
  • Hematite
15438-31-0
genes like me logo Genes that share compounds with SNCB: view

Transcripts for SNCB Gene

Unigene Clusters for SNCB Gene

Synuclein, beta:
Representative Sequences:

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

No ASD Table

Relevant External Links for SNCB Gene

GeneLoc Exon Structure for
SNCB
ECgene alternative splicing isoforms for
SNCB

Expression for SNCB Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x8.5), Brain - Cortex (x8.2), Brain - Anterior cingulate cortex (BA24) (x7.1), Brain - Amygdala (x5.4), Brain - Cerebellar Hemisphere (x4.6), Brain - Cerebellum (x4.5), and Brain - Hippocampus (x4.3).

Protein differential expression in normal tissues from HIPED for SNCB Gene

This gene is overexpressed in Frontal cortex (31.5) and Brain (29.0).

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



Protein tissue co-expression partners for SNCB Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SNCB Gene:

SNCB

SOURCE GeneReport for Unigene cluster for SNCB Gene:

Hs.90297

mRNA Expression by UniProt/SwissProt for SNCB Gene:

Q16143-SYUB_HUMAN
Tissue specificity: Expressed predominantly in brain; concentrated in presynaptic nerve terminals.

Evidence on tissue expression from TISSUES for SNCB Gene

  • Nervous system(4.8)
  • Lung(4.1)

Phenotype-based relationships between genes and organs from Gene ORGANizer for SNCB Gene

Germ Layers:
  • ectoderm
  • mesoderm
Systems:
  • nervous
  • skeletal muscle
Organs:
Head and neck:
  • brain
  • cranial nerve
  • eye
  • head
General:
  • peripheral nervous system
genes like me logo Genes that share expression patterns with SNCB: view

Primer Products

Orthologs for SNCB Gene

This gene was present in the common ancestor of chordates.

Orthologs for SNCB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNCB 34 35
  • 99.5 (n)
dog
(Canis familiaris)
Mammalia SNCB 34 35
  • 92.91 (n)
cow
(Bos Taurus)
Mammalia SNCB 34 35
  • 91.93 (n)
rat
(Rattus norvegicus)
Mammalia Sncb 34
  • 91.15 (n)
mouse
(Mus musculus)
Mammalia Sncb 34 16 35
  • 90.03 (n)
oppossum
(Monodelphis domestica)
Mammalia SNCB 35
  • 56 (a)
OneToOne
chicken
(Gallus gallus)
Aves SNCB 34 35
  • 80.58 (n)
lizard
(Anolis carolinensis)
Reptilia SNCB 35
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sncb 34
  • 76.82 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.14705 34
zebrafish
(Danio rerio)
Actinopterygii sncb 34 35
  • 69.28 (n)
zgc66343 34
Species where no ortholog for SNCB was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 SNCB Gene

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

Paralogs for SNCB Gene

Paralogs for SNCB Gene

(3) SIMAP similar genes for SNCB Gene using alignment to 3 proteins:

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

Variants for SNCB Gene

Sequence variations from dbSNP and Humsavar for SNCB Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs104893936 Pathogenic 176,626,472(-) GAGCT(A/C/G)TGTTC reference, missense
rs104893937 Pathogenic 176,621,218(-) CCCAC(A/C)CCAGG intron-variant, reference, missense
rs1000868340 -- 176,625,441(+) ATCTC(C/T)AATCT intron-variant
rs1000911301 -- 176,625,359(+) CTAAC(A/G/T)ATGGG intron-variant
rs1000994975 -- 176,630,524(+) GCGCT(A/G)CGGCA upstream-variant-2KB, utr-variant-5-prime

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

Variant ID Type Subtype PubMed ID
nsv600346 CNV loss 21841781

Variation tolerance for SNCB Gene

Residual Variation Intolerance Score: 40.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.27; 5.97% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SNCB Gene

Human Gene Mutation Database (HGMD)
SNCB
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNCB

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

Disorders for SNCB Gene

MalaCards: The human disease database

(6) MalaCards diseases for SNCB Gene - From: OMIM, ClinVar, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
dementia, lewy body
  • lewy body dementia
multiple system atrophy
  • multiple system atrophy 1, susceptibility to
synucleinopathy
  • alpha synucleinopathies
dementia
  • presenile dementia
alzheimer disease
  • alzheimer disease, late-onset
- elite association - COSMIC cancer census association via MalaCards
Search SNCB in MalaCards View complete list of genes associated with diseases

Relevant External Links for SNCB

Genetic Association Database (GAD)
SNCB
Human Genome Epidemiology (HuGE) Navigator
SNCB
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNCB
genes like me logo Genes that share disorders with SNCB: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNCB Gene

Publications for SNCB Gene

  1. Genomic organization and expression of the human beta-synuclein gene (SNCB). (PMID: 9806846) Lavedan C. … Polymeropoulos M.H. (Genomics 1998) 2 3 4 22 64
  2. Beta-synuclein gene variants and Parkinson's disease: a preliminary case-control study. (PMID: 17556099) Brighina L. … Maraganore D.M. (Neurosci. Lett. 2007) 3 22 46 64
  3. Assignment of human alpha-synuclein (SNCA) and beta-synuclein (SNCB) genes to chromosomes 4q21 and 5q35. (PMID: 7558013) Spillantini M.G. … Goedert M. (Genomics 1995) 2 3 22 64
  4. Identification of two distinct synucleins from human brain. (PMID: 8194594) Jakes R. … Goedert M. (FEBS Lett. 1994) 3 4 22 64
  5. Molecular determinants of the aggregation behavior of alpha- and beta-synuclein. (PMID: 18436957) Rivers R.C. … Christodoulou J. (Protein Sci. 2008) 3 22 64

Products for SNCB Gene

Sources for SNCB Gene

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