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DDX58 (DExD/H-box helicase 58)

Identity

Alias_namesDEAD (Asp-Glu-Ala-Asp) box polypeptide 58
Alias_symbol (synonym)RIG-I
FLJ13599
DKFZp434J1111
Other aliasRIGI
RLR-1
SGMRT2
HGNC (Hugo) DDX58
LocusID (NCBI) 23586
Atlas_Id 47150
Location 9p21.1  [Link to chromosome band 9p21]
Location_base_pair Starts at 32455302 and ends at 32526324 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
KIAA1841 (2p16.1) / DDX58 (9p21.1)TOPORS (9p21.1) / DDX58 (9p21.1)

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)DDX58   19102
Cards
Entrez_Gene (NCBI)DDX58  23586  DExD/H-box helicase 58
AliasesRIG-I; RIGI; RLR-1; SGMRT2
GeneCards (Weizmann)DDX58
Ensembl hg19 (Hinxton)ENSG00000107201 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000107201 [Gene_View]  chr9:32455302-32526324 [Contig_View]  DDX58 [Vega]
ICGC DataPortalENSG00000107201
TCGA cBioPortalDDX58
AceView (NCBI)DDX58
Genatlas (Paris)DDX58
WikiGenes23586
SOURCE (Princeton)DDX58
Genetics Home Reference (NIH)DDX58
Genomic and cartography
GoldenPath hg38 (UCSC)DDX58  -     chr9:32455302-32526324 -  9p21.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)DDX58  -     9p21.1   [Description]    (hg19-Feb_2009)
EnsemblDDX58 - 9p21.1 [CytoView hg19]  DDX58 - 9p21.1 [CytoView hg38]
Mapping of homologs : NCBIDDX58 [Mapview hg19]  DDX58 [Mapview hg38]
OMIM609631   616298   
Gene and transcription
Genbank (Entrez)AA862613 AF038963 AK023661 AK125989 AK301678
RefSeq transcript (Entrez)NM_014314
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)DDX58
Cluster EST : UnigeneHs.190622 [ NCBI ]
CGAP (NCI)Hs.190622
Alternative Splicing GalleryENSG00000107201
Gene ExpressionDDX58 [ NCBI-GEO ]   DDX58 [ EBI - ARRAY_EXPRESS ]   DDX58 [ SEEK ]   DDX58 [ MEM ]
Gene Expression Viewer (FireBrowse)DDX58 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23586
GTEX Portal (Tissue expression)DDX58
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95786   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95786  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95786
Splice isoforms : SwissVarO95786
Catalytic activity : Enzyme3.6.4.13 [ Enzyme-Expasy ]   3.6.4.133.6.4.13 [ IntEnz-EBI ]   3.6.4.13 [ BRENDA ]   3.6.4.13 [ KEGG ]   
PhosPhoSitePlusO95786
Domaine pattern : Prosite (Expaxy)HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)    RLR_CTR (PS51789)   
Domains : Interpro (EBI)CARD_dom    DEAD/DEAH_box_helicase_dom    DEATH-like_dom    Helicase_ATP-bd    Helicase_C    P-loop_NTPase    RIG-I_C-RD   
Domain families : Pfam (Sanger)CARD_2 (PF16739)    DEAD (PF00270)    Helicase_C (PF00271)    RIG-I_C-RD (PF11648)   
Domain families : Pfam (NCBI)pfam16739    pfam00270    pfam00271    pfam11648   
Domain families : Smart (EMBL)DEXDc (SM00487)  HELICc (SM00490)  
Conserved Domain (NCBI)DDX58
DMDM Disease mutations23586
Blocks (Seattle)DDX58
PDB (SRS)2LWD    2LWE    2QFB    2QFD    2RMJ    2YKG    3LRN    3LRR    3NCU    3OG8    3ZD6    3ZD7    4AY2    4BPB    4NQK    4ON9    4P4H    5E3H    5F98    5F9F    5F9H   
PDB (PDBSum)2LWD    2LWE    2QFB    2QFD    2RMJ    2YKG    3LRN    3LRR    3NCU    3OG8    3ZD6    3ZD7    4AY2    4BPB    4NQK    4ON9    4P4H    5E3H    5F98    5F9F    5F9H   
PDB (IMB)2LWD    2LWE    2QFB    2QFD    2RMJ    2YKG    3LRN    3LRR    3NCU    3OG8    3ZD6    3ZD7    4AY2    4BPB    4NQK    4ON9    4P4H    5E3H    5F98    5F9F    5F9H   
PDB (RSDB)2LWD    2LWE    2QFB    2QFD    2RMJ    2YKG    3LRN    3LRR    3NCU    3OG8    3ZD6    3ZD7    4AY2    4BPB    4NQK    4ON9    4P4H    5E3H    5F98    5F9F    5F9H   
Structural Biology KnowledgeBase2LWD    2LWE    2QFB    2QFD    2RMJ    2YKG    3LRN    3LRR    3NCU    3OG8    3ZD6    3ZD7    4AY2    4BPB    4NQK    4ON9    4P4H    5E3H    5F98    5F9F    5F9H   
SCOP (Structural Classification of Proteins)2LWD    2LWE    2QFB    2QFD    2RMJ    2YKG    3LRN    3LRR    3NCU    3OG8    3ZD6    3ZD7    4AY2    4BPB    4NQK    4ON9    4P4H    5E3H    5F98    5F9F    5F9H   
CATH (Classification of proteins structures)2LWD    2LWE    2QFB    2QFD    2RMJ    2YKG    3LRN    3LRR    3NCU    3OG8    3ZD6    3ZD7    4AY2    4BPB    4NQK    4ON9    4P4H    5E3H    5F98    5F9F    5F9H   
SuperfamilyO95786
Human Protein AtlasENSG00000107201
Peptide AtlasO95786
HPRD13131
IPIIPI00654731   IPI00295503   IPI01009182   IPI01009734   IPI01012440   
Protein Interaction databases
DIP (DOE-UCLA)O95786
IntAct (EBI)O95786
FunCoupENSG00000107201
BioGRIDDDX58
STRING (EMBL)DDX58
ZODIACDDX58
Ontologies - Pathways
QuickGOO95786
Ontology : AmiGOpositive regulation of defense response to virus by host  double-stranded DNA binding  double-stranded RNA binding  double-stranded RNA binding  double-stranded RNA binding  single-stranded RNA binding  helicase activity  protein binding  ATP binding  cytoplasm  cytosol  cytosol  bicellular tight junction  zinc ion binding  detection of virus  response to virus  positive regulation of gene expression  actin cytoskeleton  protein deubiquitination  regulation of cell migration  ubiquitin protein ligase binding  negative regulation of type I interferon production  ruffle membrane  positive regulation of granulocyte macrophage colony-stimulating factor production  positive regulation of interferon-alpha production  positive regulation of interferon-alpha production  positive regulation of interferon-beta production  positive regulation of interferon-beta production  positive regulation of interleukin-6 production  positive regulation of interleukin-8 production  regulation of type III interferon production  cytoplasmic pattern recognition receptor signaling pathway in response to virus  RIG-I signaling pathway  identical protein binding  positive regulation of transcription factor import into nucleus  response to exogenous dsRNA  innate immune response  innate immune response  positive regulation of transcription from RNA polymerase II promoter  positive regulation of sequence-specific DNA binding transcription factor activity  
Ontology : EGO-EBIpositive regulation of defense response to virus by host  double-stranded DNA binding  double-stranded RNA binding  double-stranded RNA binding  double-stranded RNA binding  single-stranded RNA binding  helicase activity  protein binding  ATP binding  cytoplasm  cytosol  cytosol  bicellular tight junction  zinc ion binding  detection of virus  response to virus  positive regulation of gene expression  actin cytoskeleton  protein deubiquitination  regulation of cell migration  ubiquitin protein ligase binding  negative regulation of type I interferon production  ruffle membrane  positive regulation of granulocyte macrophage colony-stimulating factor production  positive regulation of interferon-alpha production  positive regulation of interferon-alpha production  positive regulation of interferon-beta production  positive regulation of interferon-beta production  positive regulation of interleukin-6 production  positive regulation of interleukin-8 production  regulation of type III interferon production  cytoplasmic pattern recognition receptor signaling pathway in response to virus  RIG-I signaling pathway  identical protein binding  positive regulation of transcription factor import into nucleus  response to exogenous dsRNA  innate immune response  innate immune response  positive regulation of transcription from RNA polymerase II promoter  positive regulation of sequence-specific DNA binding transcription factor activity  
Pathways : KEGG   
NDEx NetworkDDX58
Atlas of Cancer Signalling NetworkDDX58
Wikipedia pathwaysDDX58
Orthology - Evolution
OrthoDB23586
GeneTree (enSembl)ENSG00000107201
Phylogenetic Trees/Animal Genes : TreeFamDDX58
HOVERGENO95786
HOGENOMO95786
Homologs : HomoloGeneDDX58
Homology/Alignments : Family Browser (UCSC)DDX58
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerDDX58 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)DDX58
dbVarDDX58
ClinVarDDX58
1000_GenomesDDX58 
Exome Variant ServerDDX58
ExAC (Exome Aggregation Consortium)DDX58 (select the gene name)
Genetic variants : HAPMAP23586
Genomic Variants (DGV)DDX58 [DGVbeta]
DECIPHERDDX58 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisDDX58 
Mutations
ICGC Data PortalDDX58 
TCGA Data PortalDDX58 
Broad Tumor PortalDDX58
OASIS PortalDDX58 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICDDX58  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDDDX58
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)Pharmacogenomics of Infectious Diseases (PGx_IfD )
BioMutasearch DDX58
DgiDB (Drug Gene Interaction Database)DDX58
DoCM (Curated mutations)DDX58 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)DDX58 (select a term)
intoGenDDX58
Cancer3DDDX58(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609631    616298   
Orphanet11649   
MedgenDDX58
Genetic Testing Registry DDX58
NextProtO95786 [Medical]
TSGene23586
GENETestsDDX58
Huge Navigator DDX58 [HugePedia]
snp3D : Map Gene to Disease23586
BioCentury BCIQDDX58
ClinGenDDX58
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23586
Chemical/Pharm GKB GenePA134994272
Clinical trialDDX58
Miscellaneous
canSAR (ICR)DDX58 (select the gene name)
Probes
Litterature
PubMed315 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineDDX58
EVEXDDX58
GoPubMedDDX58
iHOPDDX58
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri May 19 12:13:02 CEST 2017

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