InnateDB: Systems Biology of the Innate Immune Response

Homo sapiens Gene: DDX3X

Summary

InnateDB Gene

IDBG-229341.6

Last Modified

2014-10-13 [Report errors or provide feedback]

Gene Symbol

DDX3X

Gene Name

DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked

Synonyms

CAP-Rf; DBX; DDX14; DDX3; HLP2

Species

Homo sapiens

Ensembl Gene

ENSG00000215301

Encoded Proteins

IDBP-229343

DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked

IDBP-367919

DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked

IDBP-367934

DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked

IDBP-808421

DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked

IDBP-808422

DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked

IDBP-808428

DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked

Protein Structure

Useful resources

Stemformatics EHFPI ImmGen

InnateDB Annotation

Summary

PMID 18583960

DDX3X is a critical component of the TANK-binding kinase 1 (TBK1)-dependent innate immune response.

PMID 20127681

DDX3X is an antiviral MAVS (IPS-1) enhancer, where it can bind viral RNA to join it in the MAVS complex and this augments virus-mediated IFN-beta induction and host cell protection against virus infection.

PMID 20657822

DDX3X RNA helicase can augment TBK1/IKKepsilon activity and hepatitis B virus (HBV) polymerase (HBV Pol) inhibits this TBK1/IKBKE activity by disrupting the interaction between IKBKE and DDX3X, providing an explanation for how HBV evades innate immune response in the early phase of the infection.

PMID 25740981

DDX3X initiates a multifaceted cellular program involving dynamic associations with hepatitis C virus (HCV) RNA and proteins, CHUK, stress granules, and lipid droplet surfaces for its crucial role in the HCV life cycle.

PMID 26454002

DDX3X participates in antiviral innate immunity by controlling translation of PRKRA.

Entrez Gene

Summary

DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases. They are implicated in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Based on their distribution patterns, some members of this family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. This gene encodes a DEAD box protein, which interacts specifically with hepatitis C virus core protein resulting a change in intracellular location. This gene has a homolog located in the nonrecombining region of the Y chromosome. The protein sequence is 91% identical between this gene and the Y-linked homolog. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Jul 2010]
The protein encoded by this gene is a member of the large DEAD-box protein family, that is defined by the presence of the conserved Asp-Glu-Ala-Asp (DEAD) motif, and has ATP-dependent RNA helicase activity. This protein has been reported to display a high level of RNA-independent ATPase activity, and unlike most DEAD-box helicases, the ATPase activity is thought to be stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. This gene has a homolog located in the nonrecombining region of the Y chromosome, and multiple pseudogenes to this homolog have been described. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2014]

Gene Information

Type

Protein coding

Genomic Location

Chromosome X:41333348-41364472

Strand

Forward strand

Band

p11.4

Transcripts

ENST00000399959	ENSP00000382840
ENST00000441189	ENSP00000414281
ENST00000457138	ENSP00000392494
ENST00000478993	ENSP00000478443
ENST00000480592
ENST00000542215
ENST00000610559
ENST00000615742	ENSP00000480647
ENST00000622373
ENST00000615313
ENST00000622198
ENST00000611546
ENST00000616050
ENST00000611968	ENSP00000479790

Interactions

Number of Interactions

This gene and/or its encoded proteins are associated with 174 experimentally validated interaction(s) in this database.
They are also associated with 4 interaction(s) predicted by orthology.

Experimentally validated
Total	174 [view]
Protein-Protein	169 [view]
Protein-DNA	4 [view]
Protein-RNA	1 [view]
DNA-DNA	0
RNA-RNA	0
DNA-RNA	0

Predicted by orthology
Total	4 [view]

Gene Ontology

Molecular Function

Accession	GO Term
GO:0003676	nucleic acid binding
GO:0003677	DNA binding
GO:0003723	RNA binding
GO:0004003	ATP-dependent DNA helicase activity
GO:0004004	ATP-dependent RNA helicase activity
GO:0004386	helicase activity
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0008134	transcription factor binding
GO:0008143	poly(A) binding
GO:0008190	eukaryotic initiation factor 4E binding
GO:0016887	ATPase activity
GO:0031369	translation initiation factor binding
GO:0035613	RNA stem-loop binding
GO:0043024	ribosomal small subunit binding
GO:0044822	poly(A) RNA binding
GO:0048027	mRNA 5'-UTR binding

Biological Process

GO:0006200	ATP catabolic process
GO:0006351	transcription, DNA-templated
GO:0007059	chromosome segregation
GO:0008152	metabolic process
GO:0008625	extrinsic apoptotic signaling pathway via death domain receptors
GO:0009615	response to virus
GO:0010501	RNA secondary structure unwinding
GO:0016032	viral process
GO:0017148	negative regulation of translation
GO:0030307	positive regulation of cell growth
GO:0030308	negative regulation of cell growth
GO:0031333	negative regulation of protein complex assembly
GO:0032508	DNA duplex unwinding
GO:0032728	positive regulation of interferon-beta production
GO:0034063	stress granule assembly
GO:0035556	intracellular signal transduction
GO:0042256	mature ribosome assembly
GO:0043065	positive regulation of apoptotic process
GO:0043066	negative regulation of apoptotic process
GO:0043154	negative regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0043280	positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0045087	innate immune response (InnateDB)
GO:0045727	positive regulation of translation
GO:0045944	positive regulation of transcription from RNA polymerase II promoter
GO:0045948	positive regulation of translational initiation
GO:0071243	cellular response to arsenic-containing substance
GO:0071470	cellular response to osmotic stress
GO:0071651	positive regulation of chemokine (C-C motif) ligand 5 production
GO:0097193	intrinsic apoptotic signaling pathway
GO:1900087	positive regulation of G1/S transition of mitotic cell cycle
GO:2001243	negative regulation of intrinsic apoptotic signaling pathway

Cellular Component

GO:0005634	nucleus
GO:0005737	cytoplasm
GO:0005741	mitochondrial outer membrane
GO:0005852	eukaryotic translation initiation factor 3 complex
GO:0010494	cytoplasmic stress granule
GO:0016607	nuclear speck
GO:0022627	cytosolic small ribosomal subunit
GO:0070062	extracellular vesicular exosome

Orthologs

Species

Mus musculus

Bos taurus

Gene ID

Gene Order

ENSMUSG00000000787

View Gene Order

ENSBTAG00000035907

Not yet available

Pathways

NETPATH

NetPath_4

EGFR1 pathway

NetPath_9

TNFalpha pathway

NetPath_11

TCR pathway

REACTOME

KEGG

hsa04622

RIG-I-like receptor signaling pathway pathway

INOH

PID NCI

Cross-References

SwissProt

TrEMBL

UniProt Splice Variant

Entrez Gene

1654

UniGene

RefSeq

NM_001193416 NM_001193417 NM_001356

HUGO

HGNC:2745

OMIM

300160

CCDS

CCDS43931 CCDS55404

HPRD

IMGT

EMBL

GenPept

RNA Seq Atlas

1654