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

    Gene ID: 79132, updated on 10-Dec-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, Dec 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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 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)

    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 ATP-dependent H2AZ histone chaperone activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP-dependent H3-H4 histone complex chaperone activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA clamp loader activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA helicase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables chromatin extrusion motor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cohesin loader activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 chromatin looping IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    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, B4DV26

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

      UniProtKB/Swiss-Prot
      Q96C10, Q9HAM6
      UniProtKB/TrEMBL
      A0AA51U9C6, B4DV26

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

      UniProtKB/TrEMBL
      B3KUP5, E9PHD3

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

      UniProtKB/TrEMBL
      C9JG98
      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, B4DV26

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

      UniProtKB/Swiss-Prot
      Q96C10, Q9HAM6
      UniProtKB/TrEMBL
      A0AA51U9C6, B4DV26

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

      UniProtKB/TrEMBL
      B3KUP5, E9PHD3

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

      UniProtKB/TrEMBL
      C9JG98
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q96C10.1 GenPept UniProtKB/Swiss-Prot:Q96C10

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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