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Aliases for SOD3 Gene

Aliases for SOD3 Gene

  • Superoxide Dismutase 3, Extracellular 2 3
  • EC 1.15.1.1 4 63
  • EC-SOD 3 4
  • Extracellular Superoxide Dismutase [Cu-Zn] 3

External Ids for SOD3 Gene

Previous GeneCards Identifiers for SOD3 Gene

  • GC04P024921
  • GC04P024484
  • GC04P024546
  • GC04P024472
  • GC04P024139

Summaries for SOD3 Gene

Entrez Gene Summary for SOD3 Gene

  • This gene encodes a member of the superoxide dismutase (SOD) protein family. SODs are antioxidant enzymes that catalyze the dismutation of two superoxide radicals into hydrogen peroxide and oxygen. The product of this gene is thought to protect the brain, lungs, and other tissues from oxidative stress. The protein is secreted into the extracellular space and forms a glycosylated homotetramer that is anchored to the extracellular matrix (ECM) and cell surfaces through an interaction with heparan sulfate proteoglycan and collagen. A fraction of the protein is cleaved near the C-terminus before secretion to generate circulating tetramers that do not interact with the ECM. [provided by RefSeq, Jul 2008]

GeneCards Summary for SOD3 Gene

SOD3 (Superoxide Dismutase 3, Extracellular) is a Protein Coding gene. Diseases associated with SOD3 include keratopathy and bullous keratopathy. Among its related pathways are Cellular Senescence and Selenium Pathway. GO annotations related to this gene include heparin binding and superoxide dismutase activity. An important paralog of this gene is CCS.

UniProtKB/Swiss-Prot for SOD3 Gene

  • Protect the extracellular space from toxic effect of reactive oxygen intermediates by converting superoxide radicals into hydrogen peroxide and oxygen

Gene Wiki entry for SOD3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SOD3 Gene

Genomics for SOD3 Gene

Regulatory Elements for SOD3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SOD3 Gene

Start:
24,789,912 bp from pter
End:
24,800,845 bp from pter
Size:
10,934 bases
Orientation:
Plus strand

Genomic View for SOD3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SOD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SOD3 Gene

Proteins for SOD3 Gene

  • Protein details for SOD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P08294-SODE_HUMAN
    Recommended name:
    Extracellular superoxide dismutase [Cu-Zn]
    Protein Accession:
    P08294
    Secondary Accessions:
    • Q5U781
    • Q6FHA2

    Protein attributes for SOD3 Gene

    Size:
    240 amino acids
    Molecular mass:
    25851 Da
    Cofactor:
    Name=Cu cation; Xref=ChEBI:CHEBI:23378; Note=Binds 1 copper ion per subunit.;
    Cofactor:
    Name=Zn(2+); Xref=ChEBI:CHEBI:29105; Note=Binds 1 zinc ion per subunit.;
    Quaternary structure:
    • Homotetramer.

    Three dimensional structures from OCA and Proteopedia for SOD3 Gene

neXtProt entry for SOD3 Gene

Proteomics data for SOD3 Gene at MOPED

Selected DME Specific Peptides for SOD3 Gene

Post-translational modifications for SOD3 Gene

  • Glycosylation at Asn107, Lys229, and Lys230
  • Modification sites at PhosphoSitePlus

Other Protein References for SOD3 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

Antibody Products

Domains for SOD3 Gene

Protein Domains for SOD3 Gene

Suggested Antigen Peptide Sequences for SOD3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P08294

UniProtKB/Swiss-Prot:

SODE_HUMAN :
  • P08294
Family:
  • Belongs to the Cu-Zn superoxide dismutase family.
genes like me logo Genes that share domains with SOD3: view

No data available for Gene Families for SOD3 Gene

Function for SOD3 Gene

Molecular function for SOD3 Gene

GENATLAS Biochemistry: superoxide dismutase 3,extracellular,predominantly expressed in heart,placenta,pancreas,lung,catabolic pathway of activated oxygen species,free radical detoxification
UniProtKB/Swiss-Prot CatalyticActivity: 2 superoxide + 2 H(+) = O(2) + H(2)O(2)
UniProtKB/Swiss-Prot Function: Protect the extracellular space from toxic effect of reactive oxygen intermediates by converting superoxide radicals into hydrogen peroxide and oxygen

Enzyme Numbers (IUBMB) for SOD3 Gene

Gene Ontology (GO) - Molecular Function for SOD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004784 superoxide dismutase activity TAS --
GO:0005507 copper ion binding IBA --
GO:0005515 protein binding IPI 15528465
GO:0008201 heparin binding IEA --
GO:0008270 zinc ion binding IBA --
genes like me logo Genes that share ontologies with SOD3: view

Phenotypes for SOD3 Gene

genes like me logo Genes that share phenotypes with SOD3: view

Animal Models for SOD3 Gene

MGI Knock Outs for SOD3:

Animal Model Products

CRISPR Products

miRNA for SOD3 Gene

miRTarBase miRNAs that target SOD3

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SOD3

In Situ Assay Products

Flow Cytometry Products

No data available for Transcription Factor Targeting and HOMER Transcription for SOD3 Gene

Localization for SOD3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SOD3 Gene

Secreted, extracellular space. Note=99% of EC-SOD is anchored to heparan sulfate proteoglycans in the tissue interstitium, and 1% is located in the vasculature in equilibrium between the plasma and the endothelium.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SOD3 Gene COMPARTMENTS Subcellular localization image for SOD3 gene
Compartment Confidence
extracellular 5
cytosol 3
mitochondrion 3
nucleus 3
peroxisome 2
lysosome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for SOD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IDA 20551380
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IBA --
GO:0005796 Golgi lumen TAS --
genes like me logo Genes that share ontologies with SOD3: view

Pathways for SOD3 Gene

genes like me logo Genes that share pathways with SOD3: view

PCR Array Products

Gene Ontology (GO) - Biological Process for SOD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000302 response to reactive oxygen species TAS --
GO:0001666 response to hypoxia IEA --
GO:0006801 superoxide metabolic process --
GO:0006979 response to oxidative stress --
GO:0019430 removal of superoxide radicals IBA --
genes like me logo Genes that share ontologies with SOD3: view

Compounds for SOD3 Gene

(7) HMDB Compounds for SOD3 Gene

Compound Synonyms Cas Number PubMed IDs
Copper
  • Cu
7440-50-8
Hydrogen peroxide
  • Hydrogen peroxide
7722-84-1
Iron
  • Armco iron
7439-89-6
Manganese
  • manganese
7439-96-5
Oxygen
  • Oxygen
7782-44-7

(48) Novoseek inferred chemical compound relationships for SOD3 Gene

Compound -log(P) Hits PubMed IDs
superoxide 89 240
heparin 64.2 80
heparan sulfate 62.3 14
manganese superoxide 61.1 7
oxygen 52.3 19
genes like me logo Genes that share compounds with SOD3: view

Transcripts for SOD3 Gene

mRNA/cDNA for SOD3 Gene

Unigene Clusters for SOD3 Gene

Superoxide dismutase 3, extracellular:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SOD3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SOD3 Gene

No ASD Table

Relevant External Links for SOD3 Gene

GeneLoc Exon Structure for
SOD3
ECgene alternative splicing isoforms for
SOD3

Expression for SOD3 Gene

mRNA expression in normal human tissues for SOD3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SOD3 Gene

This gene is overexpressed in Artery - Aorta (7.8), Esophagus - Muscularis (4.5), and Artery - Coronary (4.5).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for SOD3 Gene

SOURCE GeneReport for Unigene cluster for SOD3 Gene Hs.2420

mRNA Expression by UniProt/SwissProt for SOD3 Gene

P08294-SODE_HUMAN
Tissue specificity: Expressed in blood vessels, heart, lung, kidney and placenta. Major SOD isoenzyme in extracellular fluids such as plasma, lymph and synovial fluid
genes like me logo Genes that share expressions with SOD3: view

In Situ Assay Products

Orthologs for SOD3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SOD3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SOD3 35
  • 100 (n)
  • 100 (a)
SOD3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia ECSOD 36
  • 70 (a)
OneToOne
SOD3 35
  • 83.19 (n)
  • 75.85 (a)
dog
(Canis familiaris)
Mammalia SOD3 35
  • 83.25 (n)
  • 73.21 (a)
SOD3 36
  • 53 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sod3 35
  • 76.76 (n)
  • 70.67 (a)
Sod3 16
Sod3 36
  • 59 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SOD3 36
  • 50 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sod3 35
  • 76.13 (n)
  • 68.47 (a)
chicken
(Gallus gallus)
Aves SOD3 35
  • 57.14 (n)
  • 53.46 (a)
SOD3 36
  • 45 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SOD3 36
  • 45 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sod3 35
  • 53.72 (n)
  • 50.49 (a)
zebrafish
(Danio rerio)
Actinopterygii sod3a 35
  • 54.48 (n)
  • 49.71 (a)
sod3a 36
  • 42 (a)
OneToMany
sod3b 36
  • 47 (a)
OneToMany
sod3b 36
  • 47 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Sod3 36
  • 31 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea sod-4 36
  • 25 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SOD1 36
  • 36 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5360 36
  • 39 (a)
OneToMany
Species with no ortholog for SOD3:
  • 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)
  • 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)
  • 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 SOD3 Gene

ENSEMBL:
Gene Tree for SOD3 (if available)
TreeFam:
Gene Tree for SOD3 (if available)

Paralogs for SOD3 Gene

Paralogs for SOD3 Gene

Selected SIMAP similar genes for SOD3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SOD3: view

Variants for SOD3 Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for SOD3 Gene

P08294-SODE_HUMAN
The variant Gly-231 which is found in about 2.2% of individual displays a 10-fold increased plasma EC-SOD content due to reduced heparin-binding affinity and thus the impairment of its binding ability to endothelial cell surface

Sequence variations from dbSNP and Humsavar for SOD3 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type MAF
rs699473 -- 24,795,181(+) TGCCA(C/T)GCACA upstream-variant-2KB
rs699474 -- 24,795,242(+) ACTTA(A/C/G)AGAAA upstream-variant-2KB
rs800444 -- 24,798,241(+) TTTCC(A/G)ACTGT intron-variant
rs800445 -- 24,798,261(+) TGTCT(C/T)CCCAC intron-variant
rs800446 -- 24,798,446(+) TAAAC(C/G)CATGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SOD3 Gene

Variant ID Type Subtype PubMed ID
nsv829887 CNV Gain+Loss 17160897

Relevant External Links for SOD3 Gene

HapMap Linkage Disequilibrium report
SOD3
Human Gene Mutation Database (HGMD)
SOD3

Disorders for SOD3 Gene

(2) University of Copenhagen DISEASES for SOD3 Gene

(37) Novoseek inferred disease relationships for SOD3 Gene

Disease -log(P) Hits PubMed IDs
pulmonary fibrosis 34.5 6
bullous keratopathy 34.3 2
atherosclerosis 32.4 13
lung diseases 29.5 3
keratoconus 28.3 5

Relevant External Links for SOD3

Genetic Association Database (GAD)
SOD3
Human Genome Epidemiology (HuGE) Navigator
SOD3
genes like me logo Genes that share disorders with SOD3: view

No data available for UniProtKB/Swiss-Prot for SOD3 Gene

Publications for SOD3 Gene

  1. The site of nonenzymic glycation of human extracellular-superoxide dismutase in vitro. (PMID: 1505778) Adachi T. … Marklund S.L. (Free Radic. Biol. Med. 1992) 3 4 23
  2. 10-fold increase in human plasma extracellular superoxide dismutase content caused by a mutation in heparin-binding domain. (PMID: 8034674) Sandstrom J. … Marklund S.L. (J. Biol. Chem. 1994) 3 4 23
  3. An arginine-213 to glycine mutation in human extracellular-superoxide dismutase reduces susceptibility to trypsin-like proteinases. (PMID: 8864862) Adachi T. … Hirano K. (J. Biochem. 1996) 3 4 23
  4. Polymorphisms in the Mn-SOD and EC-SOD genes and their relationship to diabetic neuropathy in type 1 diabetes mellitus. (PMID: 11299047) Chistyakov D.A. … Nosikov V.V. (BMC Med. Genet. 2001) 3 23 48
  5. Molecular analysis of extracellular-superoxide dismutase gene associated with high level in serum. (PMID: 7662997) Yamada H. … Kato K. (Jpn. J. Hum. Genet. 1995) 3 4 23

Products for SOD3 Gene

Sources for SOD3 Gene

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