Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SOD2 (superoxide dismutase 2)

Identity

Other aliasIPO-B
IPOB
MNSOD
MVCD6
Mn-SOD
HGNC (Hugo) SOD2
LocusID (NCBI) 6648
Atlas_Id 42353
Location 6q25.3  [Link to chromosome band 6q25]
Location_base_pair Starts at 159679064 and ends at 159726944 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
CD74 (5q32) / SOD2 (6q25.3)KIF5C (2q23.1) / SOD2 (6q25.3)SOD2 (6q25.3) / ANXA2 (15q22.2)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)SOD2   11180
Cards
Entrez_Gene (NCBI)SOD2  6648  superoxide dismutase 2
AliasesIPO-B; IPOB; MNSOD; MVCD6; 
Mn-SOD
GeneCards (Weizmann)SOD2
Ensembl hg19 (Hinxton)ENSG00000112096 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000112096 [Gene_View]  ENSG00000112096 [Sequence]  chr6:159679064-159726944 [Contig_View]  SOD2 [Vega]
ICGC DataPortalENSG00000112096
TCGA cBioPortalSOD2
AceView (NCBI)SOD2
Genatlas (Paris)SOD2
WikiGenes6648
SOURCE (Princeton)SOD2
Genetics Home Reference (NIH)SOD2
Genomic and cartography
GoldenPath hg38 (UCSC)SOD2  -     chr6:159679064-159726944 -  6q25.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SOD2  -     6q25.3   [Description]    (hg19-Feb_2009)
EnsemblSOD2 - 6q25.3 [CytoView hg19]  SOD2 - 6q25.3 [CytoView hg38]
Mapping of homologs : NCBISOD2 [Mapview hg19]  SOD2 [Mapview hg38]
OMIM147460   612634   
Gene and transcription
Genbank (Entrez)AA126703 AK097395 AK296809 AK304766 AK313082
RefSeq transcript (Entrez)NM_000636 NM_001024465 NM_001024466 NM_001322814 NM_001322815 NM_001322816 NM_001322817 NM_001322819 NM_001322820
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SOD2
Cluster EST : UnigeneHs.487046 [ NCBI ]
CGAP (NCI)Hs.487046
Alternative Splicing GalleryENSG00000112096
Gene ExpressionSOD2 [ NCBI-GEO ]   SOD2 [ EBI - ARRAY_EXPRESS ]   SOD2 [ SEEK ]   SOD2 [ MEM ]
Gene Expression Viewer (FireBrowse)SOD2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6648
GTEX Portal (Tissue expression)SOD2
Human Protein AtlasENSG00000112096-SOD2 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04179   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP04179  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP04179
Splice isoforms : SwissVarP04179
Catalytic activity : Enzyme1.15.1.1 [ Enzyme-Expasy ]   1.15.1.11.15.1.1 [ IntEnz-EBI ]   1.15.1.1 [ BRENDA ]   1.15.1.1 [ KEGG ]   
PhosPhoSitePlusP04179
Domaine pattern : Prosite (Expaxy)SOD_MN (PS00088)   
Domains : Interpro (EBI)Mn/Fe_SOD    Mn/Fe_SOD_BS    Mn/Fe_SOD_C    Mn/Fe_SOD_N    Mn/Fe_SOD_N_sf    SOD_C_sf   
Domain families : Pfam (Sanger)Sod_Fe_C (PF02777)    Sod_Fe_N (PF00081)   
Domain families : Pfam (NCBI)pfam02777    pfam00081   
Conserved Domain (NCBI)SOD2
DMDM Disease mutations6648
Blocks (Seattle)SOD2
PDB (SRS)1AP5    1AP6    1EM1    1JA8    1LUV    1LUW    1MSD    1N0J    1N0N    1PL4    1PM9    1QNM    1SZX    1VAR    1XDC    1XIL    1ZSP    1ZTE    1ZUQ    2ADP    2ADQ    2GDS    2P4K    2QKA    2QKC    3C3S    3C3T    5GXO    5T30    5VF9   
PDB (PDBSum)1AP5    1AP6    1EM1    1JA8    1LUV    1LUW    1MSD    1N0J    1N0N    1PL4    1PM9    1QNM    1SZX    1VAR    1XDC    1XIL    1ZSP    1ZTE    1ZUQ    2ADP    2ADQ    2GDS    2P4K    2QKA    2QKC    3C3S    3C3T    5GXO    5T30    5VF9   
PDB (IMB)1AP5    1AP6    1EM1    1JA8    1LUV    1LUW    1MSD    1N0J    1N0N    1PL4    1PM9    1QNM    1SZX    1VAR    1XDC    1XIL    1ZSP    1ZTE    1ZUQ    2ADP    2ADQ    2GDS    2P4K    2QKA    2QKC    3C3S    3C3T    5GXO    5T30    5VF9   
PDB (RSDB)1AP5    1AP6    1EM1    1JA8    1LUV    1LUW    1MSD    1N0J    1N0N    1PL4    1PM9    1QNM    1SZX    1VAR    1XDC    1XIL    1ZSP    1ZTE    1ZUQ    2ADP    2ADQ    2GDS    2P4K    2QKA    2QKC    3C3S    3C3T    5GXO    5T30    5VF9   
Structural Biology KnowledgeBase1AP5    1AP6    1EM1    1JA8    1LUV    1LUW    1MSD    1N0J    1N0N    1PL4    1PM9    1QNM    1SZX    1VAR    1XDC    1XIL    1ZSP    1ZTE    1ZUQ    2ADP    2ADQ    2GDS    2P4K    2QKA    2QKC    3C3S    3C3T    5GXO    5T30    5VF9   
SCOP (Structural Classification of Proteins)1AP5    1AP6    1EM1    1JA8    1LUV    1LUW    1MSD    1N0J    1N0N    1PL4    1PM9    1QNM    1SZX    1VAR    1XDC    1XIL    1ZSP    1ZTE    1ZUQ    2ADP    2ADQ    2GDS    2P4K    2QKA    2QKC    3C3S    3C3T    5GXO    5T30    5VF9   
CATH (Classification of proteins structures)1AP5    1AP6    1EM1    1JA8    1LUV    1LUW    1MSD    1N0J    1N0N    1PL4    1PM9    1QNM    1SZX    1VAR    1XDC    1XIL    1ZSP    1ZTE    1ZUQ    2ADP    2ADQ    2GDS    2P4K    2QKA    2QKC    3C3S    3C3T    5GXO    5T30    5VF9   
SuperfamilyP04179
Human Protein Atlas [tissue]ENSG00000112096-SOD2 [tissue]
Peptide AtlasP04179
HPRD00938
IPIIPI00022314   IPI00847322   IPI00911015   IPI01010613   IPI00607577   IPI01011075   IPI01015105   IPI01009411   IPI01015974   IPI01013434   
Protein Interaction databases
DIP (DOE-UCLA)P04179
IntAct (EBI)P04179
FunCoupENSG00000112096
BioGRIDSOD2
STRING (EMBL)SOD2
ZODIACSOD2
Ontologies - Pathways
QuickGOP04179
Ontology : AmiGOresponse to superoxide  age-dependent response to reactive oxygen species  release of cytochrome c from mitochondria  acetylcholine-mediated vasodilation involved in regulation of systemic arterial blood pressure  superoxide dismutase activity  superoxide dismutase activity  superoxide dismutase activity  mitochondrion  mitochondrion  mitochondrial matrix  mitochondrial matrix  regulation of transcription by RNA polymerase II  superoxide metabolic process  aging  regulation of blood pressure  negative regulation of cell proliferation  removal of superoxide radicals  manganese ion binding  manganese ion binding  positive regulation of cell migration  oxygen homeostasis  cellular response to oxidative stress  interleukin-12-mediated signaling pathway  identical protein binding  negative regulation of neuron apoptotic process  metal ion binding  protein homotetramerization  oxidation-reduction process  extracellular exosome  negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway  negative regulation of vascular smooth muscle cell proliferation  positive regulation of vascular associated smooth muscle cell apoptotic process  positive regulation of vascular smooth muscle cell differentiation involved in phenotypic switching  
Ontology : EGO-EBIresponse to superoxide  age-dependent response to reactive oxygen species  release of cytochrome c from mitochondria  acetylcholine-mediated vasodilation involved in regulation of systemic arterial blood pressure  superoxide dismutase activity  superoxide dismutase activity  superoxide dismutase activity  mitochondrion  mitochondrion  mitochondrial matrix  mitochondrial matrix  regulation of transcription by RNA polymerase II  superoxide metabolic process  aging  regulation of blood pressure  negative regulation of cell proliferation  removal of superoxide radicals  manganese ion binding  manganese ion binding  positive regulation of cell migration  oxygen homeostasis  cellular response to oxidative stress  interleukin-12-mediated signaling pathway  identical protein binding  negative regulation of neuron apoptotic process  metal ion binding  protein homotetramerization  oxidation-reduction process  extracellular exosome  negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway  negative regulation of vascular smooth muscle cell proliferation  positive regulation of vascular associated smooth muscle cell apoptotic process  positive regulation of vascular smooth muscle cell differentiation involved in phenotypic switching  
Pathways : KEGGFoxO signaling pathway    Peroxisome    Huntington's disease   
NDEx NetworkSOD2
Atlas of Cancer Signalling NetworkSOD2
Wikipedia pathwaysSOD2
Orthology - Evolution
OrthoDB6648
GeneTree (enSembl)ENSG00000112096
Phylogenetic Trees/Animal Genes : TreeFamSOD2
HOVERGENP04179
HOGENOMP04179
Homologs : HomoloGeneSOD2
Homology/Alignments : Family Browser (UCSC)SOD2
Gene fusions - Rearrangements
Fusion : QuiverSOD2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSOD2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SOD2
dbVarSOD2
ClinVarSOD2
1000_GenomesSOD2 
Exome Variant ServerSOD2
ExAC (Exome Aggregation Consortium)ENSG00000112096
GNOMAD BrowserENSG00000112096
Varsome BrowserSOD2
Genetic variants : HAPMAP6648
Genomic Variants (DGV)SOD2 [DGVbeta]
DECIPHERSOD2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSOD2 
Mutations
ICGC Data PortalSOD2 
TCGA Data PortalSOD2 
Broad Tumor PortalSOD2
OASIS PortalSOD2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSOD2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSOD2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
LOVD (Leiden Open Variation Database)Pharmacogenomics of Infectious Diseases (PGx_IfD )
BioMutasearch SOD2
DgiDB (Drug Gene Interaction Database)SOD2
DoCM (Curated mutations)SOD2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SOD2 (select a term)
intoGenSOD2
Cancer3DSOD2(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM147460    612634   
Orphanet
DisGeNETSOD2
MedgenSOD2
Genetic Testing Registry SOD2
NextProtP04179 [Medical]
TSGene6648
GENETestsSOD2
Target ValidationSOD2
Huge Navigator SOD2 [HugePedia]
snp3D : Map Gene to Disease6648
BioCentury BCIQSOD2
ClinGenSOD2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6648
Chemical/Pharm GKB GenePA36017
Clinical trialSOD2
Miscellaneous
canSAR (ICR)SOD2 (select the gene name)
Probes
Litterature
PubMed499 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSOD2
EVEXSOD2
GoPubMedSOD2
iHOPSOD2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 6 11:41:06 CET 2018

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