U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    DDX5 DEAD-box helicase 5 [ Homo sapiens (human) ]

    Gene ID: 1655, updated on 27-Nov-2024

    Summary

    Official Symbol
    DDX5provided by HGNC
    Official Full Name
    DEAD-box helicase 5provided by HGNC
    Primary source
    HGNC:HGNC:2746
    See related
    Ensembl:ENSG00000108654 MIM:180630; AllianceGenome:HGNC:2746
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    p68; HLR1; G17P1; HUMP68
    Summary
    This gene encodes a member of the DEAD box family of RNA helicases that are involved in a variety of cellular processes as a result of its role as an adaptor molecule, promoting interactions with a large number of other factors. This protein is involved in pathways that include the alteration of RNA structures, plays a role as a coregulator of transcription, a regulator of splicing, and in the processing of small noncoding RNAs. Members of this family contain nine conserved motifs, including the conserved Asp-Glu-Ala-Asp (DEAD) motif, important to ATP binding and hydrolysis as well as RNA binding and unwinding activities. Dysregulation of this gene may play a role in cancer development. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2017]
    Expression
    Ubiquitous expression in bone marrow (RPKM 190.1), lymph node (RPKM 152.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See DDX5 in Genome Data Viewer
    Location:
    17q23.3
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (64498254..64506866, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (65368010..65376622, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (62494372..62502984, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr17:62398397-62398608 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12589 Neighboring gene platelet and endothelial cell adhesion molecule 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12591 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8842 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12592 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:62469307-62469807 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:62486099-62486273 Neighboring gene mast cell immunoglobulin like receptor 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:62492349-62493208 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12594 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8843 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12595 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12596 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:62503269-62503885 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12598 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12597 Neighboring gene ATP synthase membrane subunit f pseudogene 4 Neighboring gene DNA polymerase gamma 2, accessory subunit Neighboring gene microRNA 5047 Neighboring gene microRNA 3064 Neighboring gene centrosomal protein 95 Neighboring gene SMAD specific E3 ubiquitin protein ligase 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8844 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8845 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8846 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:62658719-62659277 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:62702502-62703701 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12600 Neighboring gene MICOS10 pseudogene 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    siRNA knockdown of DDX5 decreases intra- and extra-cellular HIV CA(p24) from HeLa cells transfected with env-deleted HIV-1 plasmid, a vesicular stomatitis virus glycoprotein plasmid and specific siRNA. Resulting HIV-1 demonstrates decreased infectivity. PubMed
    siRNA knockdown of DDX5 decreases HIV RNA and consequently virus production as measured by CA (p24) and infectivity by 2-3 times compared with siControl-treated cells (HeLa-M and TZM-bl) PubMed
    Knockdown of DEAD (Asp-Glu-Ala-Asp) box helicase 5 (DDX5) by siRNA inhibits HIV-1 replication in primary CD4+ T cells PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify DEAD (Asp-Glu-Ala-Asp) box helicase 5 (DDX5), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify DEAD (Asp-Glu-Ala-Asp) box helicase 5 (DDX5), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify DEAD (Asp-Glu-Ala-Asp) box helicase 5 (DDX5), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag HIV-1 Gag interacts with RPS6 as demonstrated by proximity dependent biotinylation proteomics PubMed
    gag Tandem affinity purification and mass spectrometry analysis identify DEAD (Asp-Glu-Ala-Asp) box helicase 5 (DDX5), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Rev rev DDX5 enhances the Rev-dependent HIV-1 RNA export and the interaction between DDX5 and Rev is largely dependent on RNA PubMed
    rev DDX5 interacts with HIV-1 Rev and enhances the Rev function. DDX5 co-localizes with Rev in both nucleolus and nucleus PubMed
    rev DDX5 interacts with DDX1, DDX3, or DDX21 and synergistically enhances the Rev function PubMed
    rev HIV-1 Rev interacting protein, DEAD (Asp-Glu-Ala-Asp) box polypeptide 5 (DDX5), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with DDX5 is increased by RRE PubMed
    Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies upregulation of DEAD (Asp-Glu-Ala-Asp) box helicase 5 (DDX5) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed
    capsid gag siRNA knockdown of DDX5 decreases intra- and extra-cellular HIV CA(p24) from HeLa cells transfected with env-deleted HIV-1 plasmid, a vesicular stomatitis virus glycoprotein plasmid and specific siRNA. Resulting HIV-1 demonstrates decreased infectivity. PubMed
    gag Knockdown of DDX5 by siRNA inhibits HIV-1 replication with downregulated levels of HIV-1 CA expression in CD4+ T cells PubMed
    matrix gag HIV-1 MA upregulates DDX5 gene expression in HepG2 cells PubMed
    retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human DEAD (Asp-Glu-Ala-Asp) box helicase 5 (DDX5) at amino acid residues 96-97 by the HIV-1 protease PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • DKFZp434E109, DKFZp686J01190

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
     
    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 clamp loader activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables MH2 domain binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables R-SMAD binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables RNA binding HDA PubMed 
    enables RNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA helicase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables RNA helicase activity NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables SMAD binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables calcium-dependent protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables calmodulin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin extrusion motor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables cohesin loader activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables enzyme binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables nuclear androgen receptor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables pre-mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables primary miRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables promoter-specific chromatin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables ribonucleoprotein complex binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in BMP signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in alternative mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in androgen receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in chromatin looping IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in epithelial to mesenchymal transition IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in estrogen receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in intrinsic apoptotic signaling pathway by p53 class mediator IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in mRNA splicing, via spliceosome IC
    Inferred by Curator
    more info
    PubMed 
    involved_in mRNA transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in miRNA transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in myoblast differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in nuclear-transcribed mRNA catabolic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA damage response, signal transduction by p53 class mediator IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in primary miRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of alternative mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of alternative mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of androgen receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    NOT involved_in regulation of miRNA transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of osteoblast differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of skeletal muscle cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of viral genome replication IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in rhythmic process IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in extracellular exosome HDA PubMed 
    located_in membrane HDA PubMed 
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus HDA PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    part_of ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    probable ATP-dependent RNA helicase DDX5
    Names
    ATP-dependent RNA helicase DDX5
    DEAD (Asp-Glu-Ala-Asp) box helicase 5
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 5
    DEAD box protein 5
    DEAD box-5
    DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 5 (RNA helicase, 68kD)
    RNA helicase p68
    NP_001307524.1
    NP_001307525.1
    NP_001307526.1
    NP_004387.1
    XP_047291469.1
    XP_054171273.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001320595.2NP_001307524.1  probable ATP-dependent RNA helicase DDX5 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 through 3 encode the same isoform.
      Source sequence(s)
      AC009994, AC234063
      Consensus CDS
      CCDS11659.1
      UniProtKB/Swiss-Prot
      B4DLW8, B5BU21, D3DU32, E7ETL9, O75681, P17844, Q53Y61
      UniProtKB/TrEMBL
      B5BUE6
      Related
      ENSP00000463168.2, ENST00000585111.2
      Conserved Domains (2) summary
      PTZ00110
      Location:6507
      PTZ00110; helicase; Provisional
      pfam08061
      Location:498532
      P68HR; P68HR (NUC004) repeat
    2. NM_001320596.3NP_001307525.1  probable ATP-dependent RNA helicase DDX5 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 through 3 encode the same isoform (a).
      Source sequence(s)
      AC234063, AI653967, BC016027, BP230373, DA918007
      Consensus CDS
      CCDS11659.1
      UniProtKB/Swiss-Prot
      B4DLW8, B5BU21, D3DU32, E7ETL9, O75681, P17844, Q53Y61
      UniProtKB/TrEMBL
      B5BUE6
      Related
      ENSP00000403085.3, ENST00000450599.7
      Conserved Domains (2) summary
      PTZ00110
      Location:6507
      PTZ00110; helicase; Provisional
      pfam08061
      Location:498532
      P68HR; P68HR (NUC004) repeat
    3. NM_001320597.2NP_001307526.1  probable ATP-dependent RNA helicase DDX5 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) has a different 5' structure, resulting in a novel 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (b) has a distinct N-terminus, and is the same length as isoform a.
      Source sequence(s)
      AK310318, BM695261, BU160611, CN280686, DB231101, N67237
      Consensus CDS
      CCDS82190.1
      UniProtKB/TrEMBL
      B5BUE6, J3KTA4
      Related
      ENSP00000462885.1, ENST00000578804.5
      Conserved Domains (2) summary
      pfam08061
      Location:551583
      P68HR; P68HR (NUC004) repeat
      cl26939
      Location:14507
      DEXDc; DEAD-like helicases superfamily
    4. NM_004396.5NP_004387.1  probable ATP-dependent RNA helicase DDX5 isoform a

      See identical proteins and their annotated locations for NP_004387.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 through 3 encode the same isoform (a).
      Source sequence(s)
      BC016027, BM695261, BU160611, CN280686, DB133401, N67237
      Consensus CDS
      CCDS11659.1
      UniProtKB/Swiss-Prot
      B4DLW8, B5BU21, D3DU32, E7ETL9, O75681, P17844, Q53Y61
      UniProtKB/TrEMBL
      B5BUE6
      Related
      ENSP00000225792.5, ENST00000225792.10
      Conserved Domains (2) summary
      PTZ00110
      Location:6507
      PTZ00110; helicase; Provisional
      pfam08061
      Location:498532
      P68HR; P68HR (NUC004) repeat

    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
      64498254..64506866 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047435513.1XP_047291469.1  probable ATP-dependent RNA helicase DDX5 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      65368010..65376622 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054315298.1XP_054171273.1  probable ATP-dependent RNA helicase DDX5 isoform X1