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DHX58 DExH-box helicase 58 [ Homo sapiens (human) ]

Gene ID: 79132, updated on 3-Nov-2024

Summary

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Official Symbol
DHX58provided by HGNC
Official Full Name
DExH-box helicase 58provided by HGNC
Primary source
HGNC:HGNC:29517
See related
Ensembl:ENSG00000108771 MIM:608588; AllianceGenome:HGNC:29517
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LGP2; RLR-3; D11LGP2; D11lgp2e
Summary
Enables several functions, including ATP hydrolysis activity; RNA binding activity; and zinc ion binding activity. Involved in negative regulation of type I interferon production and regulation of innate immune response. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in spleen (RPKM 10.6), testis (RPKM 8.8) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See DHX58 in Genome Data Viewer
Location:
17q21.2
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (42101411..42112714, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (42957915..42969232, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (40253429..40264732, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene MED14-independent group 3 enhancer GRCh37_chr17:40168666-40169865 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8510 Neighboring gene NFKB inhibitor interacting Ras like 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12182 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40180775-40181563 Neighboring gene zinc finger protein 385C Neighboring gene chromosome 17 open reading frame 113 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8511 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8512 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40203397-40203898 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40214064-40214654 Neighboring gene Sharpr-MPRA regulatory region 8946 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8513 Neighboring gene Sharpr-MPRA regulatory region 13373 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40220039-40220539 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40223445-40224418 Neighboring gene Sharpr-MPRA regulatory region 2167 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40256421-40257354 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40257355-40258286 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12183 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40259930-40260442 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12184 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12185 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40267799-40268334 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8516 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40275137-40275674 Neighboring gene lysine acetyltransferase 2A Neighboring gene heat shock protein family B (small) member 9

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Unraveling blunt-end RNA binding and ATPase-driven translocation activities of the RIG-I family helicase LGP2. Lee KY, et al. Nucleic Acids Res, 2024 Jan 11. PMID 38015453, Free PMC Article
  2. The RIG-I-like receptor LGP2 inhibits Dicer-dependent processing of long double-stranded RNA and blocks RNA interference in mammalian cells. van der Veen AG, et al. EMBO J, 2018 Feb 15. PMID 29351913, Free PMC Article
  3. Innate immune sensor laboratory of genetics and physiology 2 suppresses tumor cell growth and functions as a prognostic marker in neuroblastoma. Lin LL, et al. Cancer Sci, 2018 Nov. PMID 30179292, Free PMC Article
  4. RNA sensing via the RIG-I-like receptor LGP2 is essential for the induction of a type I IFN response in ADAR1 deficiency. Stok JE, et al. EMBO J, 2022 Mar 15. PMID 35156720, Free PMC Article
  5. ATP hydrolysis enhances RNA recognition and antiviral signal transduction by the innate immune sensor, laboratory of genetics and physiology 2 (LGP2). Bruns AM, et al. J Biol Chem, 2013 Jan 11. PMID 23184951, Free PMC Article

See all (63) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Contrasting functions of ATP hydrolysis by MDA5 and LGP2 in viral RNA sensing.
    Title: Contrasting functions of ATP hydrolysis by MDA5 and LGP2 in viral RNA sensing.
  2. Unraveling blunt-end RNA binding and ATPase-driven translocation activities of the RIG-I family helicase LGP2.
    Title: Unraveling blunt-end RNA binding and ATPase-driven translocation activities of the RIG-I family helicase LGP2.
  3. The RNA-Binding Proteins OAS1, ZFP36L2, and DHX58 Are Involved in the Regulation of CD44 mRNA Splicing in Colorectal Cancer Cells.
    Title: The RNA-Binding Proteins OAS1, ZFP36L2, and DHX58 Are Involved in the Regulation of CD44 mRNA Splicing in Colorectal Cancer Cells.
  4. Genetic variants of IFIH1 and DHX58 affect the chronicity of hepatitis C in the Chinese Han population.
    Title: Genetic variants of IFIH1 and DHX58 affect the chronicity of hepatitis C in the Chinese Han population.
  5. K63-linked polyubiquitination of LGP2 by Riplet regulates RIG-I-dependent innate immune response.
    Title: K63-linked polyubiquitination of LGP2 by Riplet regulates RIG-I-dependent innate immune response.
  6. Effect of variants in LGP2 on MDA5-mediated activation of interferon response and suppression of hepatitis D virus replication.
    Title: Effect of variants in LGP2 on MDA5-mediated activation of interferon response and suppression of hepatitis D virus replication.
  7. Function conservation and disparities of zebrafish and human LGP2 genes in fish and mammalian cells responsive to poly(I:C).
    Title: Function conservation and disparities of zebrafish and human LGP2 genes in fish and mammalian cells responsive to poly(I:C).
  8. RNA sensing via the RIG-I-like receptor LGP2 is essential for the induction of a type I IFN response in ADAR1 deficiency.
    Title: RNA sensing via the RIG-I-like receptor LGP2 is essential for the induction of a type I IFN response in ADAR1 deficiency.
  9. RIG-I-Like Receptor LGP2 Is Required for Tumor Control by Radiotherapy.
    Title: RIG-I-Like Receptor LGP2 Is Required for Tumor Control by Radiotherapy.
  10. Spatiotemporal dynamics of innate immune signaling via RIG-I-like receptors.
    Title: Spatiotemporal dynamics of innate immune signaling via RIG-I-like receptors.
Submit: New GeneRIF Correction See all GeneRIFs (41)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of DEXH (Asp-Glu-X-His) box polypeptide 58 (DHX58) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA helicase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables double-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables double-stranded RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables single-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables zinc ion binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in antiviral innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cytoplasmic pattern recognition receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cytoplasmic pattern recognition receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of MDA-5 signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of RIG-I signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of RIG-I signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of RIG-I signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of innate immune response IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of type I interferon production IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of MDA-5 signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of RIG-I signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of type I interferon production ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of innate immune response IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in response to bacterium IEA
Inferred from Electronic Annotation
more info
  
involved_in response to virus ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
ATP-dependent RNA helicase DHX58
Names
ATP-dependent helicase LGP2
DEXH (Asp-Glu-X-His) box polypeptide 58
RIG-I-like receptor 3
RIG-I-like receptor LGP2
RLR
RNA helicase LGP2
ortholog of mouse D11lgp2
probable ATP-dependent RNA helicase DHX58
probable ATP-dependent helicase LGP2
protein D11Lgp2 homolog
NP_077024.2
XP_047292680.1
XP_047292681.1
XP_047292682.1
XP_047292683.1
XP_054173139.1
XP_054173140.1
XP_054173141.1
XP_054173142.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_024119.3 → NP_077024.2  ATP-dependent RNA helicase DHX58

    See identical proteins and their annotated locations for NP_077024.2

    Status: VALIDATED

    Source sequence(s)
    AK021416, BC014949
    Consensus CDS
    CCDS11416.1
    UniProtKB/Swiss-Prot
    Q96C10, Q9HAM6
    UniProtKB/TrEMBL
    A0AA51U9C6, B4DV26
    Related
    ENSP00000251642.3, ENST00000251642.8
    Conserved Domains (4) summary
    cd15806
    Location:552 → 664
    LGP2_C; C-terminal domain of Laboratory of Genetics and Physiology 2 (LGP2), a cytoplasmic viral RNA receptor
    cd12090
    Location:227 → 345
    MDA5_ID; Insert domain of MDA5
    cd18802
    Location:349 → 483
    SF2_C_dicer; C-terminal helicase domain of the endoribonuclease Dicer
    cd18075
    Location:1 → 200
    DEXHc_RLR-3; DEXH-box helicase domain of RLR-3

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    42101411..42112714 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047436724.1 → XP_047292680.1  ATP-dependent RNA helicase DHX58 isoform X1

    UniProtKB/Swiss-Prot
    Q96C10, Q9HAM6
    UniProtKB/TrEMBL
    A0AA51U9C6

  2. XM_047436725.1 → XP_047292681.1  ATP-dependent RNA helicase DHX58 isoform X1

    UniProtKB/Swiss-Prot
    Q96C10, Q9HAM6
    UniProtKB/TrEMBL
    A0AA51U9C6

  3. XM_047436726.1 → XP_047292682.1  ATP-dependent RNA helicase DHX58 isoform X2

  4. XM_047436727.1 → XP_047292683.1  ATP-dependent RNA helicase DHX58 isoform X3

    Related
    ENSP00000416389.1, ENST00000413196.6

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    42957915..42969232 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054317164.1 → XP_054173139.1  ATP-dependent RNA helicase DHX58 isoform X1

    UniProtKB/Swiss-Prot
    Q96C10, Q9HAM6
    UniProtKB/TrEMBL
    A0AA51U9C6

  2. XM_054317165.1 → XP_054173140.1  ATP-dependent RNA helicase DHX58 isoform X1

    UniProtKB/Swiss-Prot
    Q96C10, Q9HAM6
    UniProtKB/TrEMBL
    A0AA51U9C6

  3. XM_054317166.1 → XP_054173141.1  ATP-dependent RNA helicase DHX58 isoform X2

  4. XM_054317167.1 → XP_054173142.1  ATP-dependent RNA helicase DHX58 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96C10.1 GenPept UniProtKB/Swiss-Prot:Q96C10

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