U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    DDX47 DEAD-box helicase 47 [ Homo sapiens (human) ]

    Gene ID: 51202, updated on 27-Nov-2024

    Summary

    Official Symbol
    DDX47provided by HGNC
    Official Full Name
    DEAD-box helicase 47provided by HGNC
    Primary source
    HGNC:HGNC:18682
    See related
    Ensembl:ENSG00000213782 MIM:615428; AllianceGenome:HGNC:18682
    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
    RRP3; E4-DBP; HQ0256; MSTP162
    Summary
    This gene encodes a member of the DEAD box protein family. 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. The protein encoded by this gene can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. Two alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in thyroid (RPKM 25.1), lymph node (RPKM 21.1) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See DDX47 in Genome Data Viewer
    Location:
    12p13.1
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (12813346..12829981)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (12686924..12703560)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (12966280..12982915)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene apolipoprotein L domain containing 1 Neighboring gene microRNA 613 Neighboring gene syntaxin 8 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4267 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4268 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:12955832-12956332 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr12:12956863-12958062 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6031 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:12975829-12977028 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:12987821-12989020 Neighboring gene ribosomal protein L37a pseudogene 9 Neighboring gene ribosomal protein S6 pseudogene 1

    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

    Protein interactions

    Protein Gene Interaction Pubs
    Rev rev HIV-1 Rev interacting protein, DEAD (Asp-Glu-Ala-Asp) box polypeptide 47 (DDX47), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with DDX47 is increased by RRE 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

    Potential readthrough

    Included gene: APOLD1

    Clone Names

    • FLJ30012, DKFZp564O176

    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 RNA binding HDA PubMed 
    enables RNA helicase activity 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 protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in RNA splicing 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 extrinsic apoptotic signaling pathway via death domain receptors IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in rRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in rRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in membrane HDA PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    probable ATP-dependent RNA helicase DDX47
    Names
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 47
    DEAD box polypeptide 47
    DEAD box protein 47
    E4-DEAD box protein
    NP_057439.2
    NP_957518.1

    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_016355.4NP_057439.2  probable ATP-dependent RNA helicase DDX47 isoform 1

      See identical proteins and their annotated locations for NP_057439.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AL136666, BC009379
      Consensus CDS
      CCDS8655.1
      UniProtKB/Swiss-Prot
      B3KXP4, G5E955, Q96GM0, Q96NV8, Q9H0S4, Q9UI98
      UniProtKB/TrEMBL
      Q9H4E3
      Related
      ENSP00000350698.3, ENST00000358007.7
      Conserved Domains (3) summary
      PRK11192
      Location:24446
      PRK11192; ATP-dependent RNA helicase SrmB; Provisional
      cd00079
      Location:237366
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      cd00268
      Location:26227
      DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif ...
    2. NM_201224.2NP_957518.1  probable ATP-dependent RNA helicase DDX47 isoform 2

      See identical proteins and their annotated locations for NP_957518.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, as compared to variant 1. The encoded isoform (2) is thus missing an internal segment, as compared to isoform 1.
      Source sequence(s)
      AF078843, AL136666, BC009379
      Consensus CDS
      CCDS8656.1
      UniProtKB/TrEMBL
      Q9H4E3
      Related
      ENSP00000319578.6, ENST00000352940.8
      Conserved Domains (3) summary
      PRK11192
      Location:24397
      PRK11192; ATP-dependent RNA helicase SrmB; Provisional
      cd00079
      Location:184317
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      cd00268
      Location:26227
      DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif ...

    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_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      12813346..12829981
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      12686924..12703560
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)