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

Gene ID: 1655, updated on 3-Mar-2019

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
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

Genomic context

See DDX5 in Genome Data Viewer
Location:
17q23.3
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 17 NC_000017.11 (64498254..64507038, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (62494374..62503042, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene platelet and endothelial cell adhesion molecule 1 Neighboring gene mast cell immunoglobulin like receptor 1 Neighboring gene ATP synthase membrane subunit f pseudogene 4 Neighboring gene DNA polymerase gamma 2, accessory subunit Neighboring gene microRNA 3064 Neighboring gene microRNA 5047 Neighboring gene centrosomal protein 95 Neighboring gene SMAD specific E3 ubiquitin protein ligase 2 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 FunctionsWhat'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 BioSystems

  • Circadian rythm related genes, organism-specific biosystem (from WikiPathways)
    Circadian rythm related genes, organism-specific biosystemThis is currently not a pathway but a list of circadian rhythm related genes and proteins. The source for this information is the gene ontology. The genes and proteins were filtered for "circadian rh...
  • Direct p53 effectors, organism-specific biosystem (from Pathway Interaction Database)
    Direct p53 effectors, organism-specific biosystem
    Direct p53 effectors
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • Proteoglycans in cancer, organism-specific biosystem (from KEGG)
    Proteoglycans in cancer, organism-specific biosystemMany proteoglycans (PGs) in the tumor microenvironment have been shown to be key macromolecules that contribute to biology of various types of cancer including proliferation, adhesion, angiogenesis a...
  • Proteoglycans in cancer, conserved biosystem (from KEGG)
    Proteoglycans in cancer, conserved biosystemMany proteoglycans (PGs) in the tumor microenvironment have been shown to be key macromolecules that contribute to biology of various types of cancer including proliferation, adhesion, angiogenesis a...
  • Spliceosome, organism-specific biosystem (from KEGG)
    Spliceosome, organism-specific biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
  • Spliceosome, conserved biosystem (from KEGG)
    Spliceosome, conserved biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
  • Transcriptional misregulation in cancer, organism-specific biosystem (from KEGG)
    Transcriptional misregulation in cancer, organism-specific biosystem
    Transcriptional misregulation in cancer
  • Transcriptional misregulation in cancer, conserved biosystem (from KEGG)
    Transcriptional misregulation in cancer, conserved biosystem
    Transcriptional misregulation in cancer
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp434E109, DKFZp686J01190

Gene Ontology Provided by GOA

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

NCBI Reference Sequences (RefSeq)

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_001320595.1NP_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
    P17844
    Conserved Domains (2) summary
    pfam08061
    Location:551583
    P68HR; P68HR (NUC004) repeat
    cl26939
    Location:6507
    DEXDc; DEAD-like helicases superfamily
  2. NM_001320596.2NP_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
    P17844
    Conserved Domains (2) summary
    pfam08061
    Location:551583
    P68HR; P68HR (NUC004) repeat
    cl26939
    Location:6507
    DEXDc; DEAD-like helicases superfamily
  3. NM_001320597.1NP_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
    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_004396.4NP_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
    P17844
    Related
    ENSP00000225792.5, ENST00000225792.9
    Conserved Domains (2) summary
    pfam08061
    Location:551583
    P68HR; P68HR (NUC004) repeat
    cl26939
    Location:6507
    DEXDc; DEAD-like helicases superfamily

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

    Range
    64498254..64507038 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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