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DDX21 DExD-box helicase 21 [ Homo sapiens (human) ]

Gene ID: 9188, updated on 4-Oct-2020

Summary

Official Symbol
DDX21provided by HGNC
Official Full Name
DExD-box helicase 21provided by HGNC
Primary source
HGNC:HGNC:2744
See related
Ensembl:ENSG00000165732 MIM:606357
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
GUA; GURDB; RH-II/GU; RH-II/GuA
Summary
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. This gene encodes a DEAD box protein, which is an antigen recognized by autoimmune antibodies from a patient with watermelon stomach disease. This protein unwinds double-stranded RNA, folds single-stranded RNA, and may play important roles in ribosomal RNA biogenesis, RNA editing, RNA transport, and general transcription. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 38.2), appendix (RPKM 33.3) and 25 other tissues See more
Orthologs

Genomic context

See DDX21 in Genome Data Viewer
Location:
10q22.1
Exon count:
16
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (68956131..68985068)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (70715879..70744825)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene storkhead box 1 Neighboring gene RNA, U6 small nuclear 697, pseudogene Neighboring gene DExD-box helicase 50 Neighboring gene RNA, U6 small nuclear 571, pseudogene Neighboring gene mediator complex subunit 28 pseudogene 1 Neighboring gene kinesin family binding protein Neighboring gene ACTB pseudogene 14

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
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify DEAD (Asp-Glu-Ala-Asp) box helicase 21 (DDX21), 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 21 (DDX21), 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 21 (DDX21), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify DEAD (Asp-Glu-Ala-Asp) box helicase 21 (DDX21), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Rev rev DDX5 interacts with DDX21 and synergistically enhances the Rev function PubMed
rev DDX21 interacts with HIV-1 Rev and enhances the Rev function. DDX21 partially co-localizes with Rev in the perinucleolar region PubMed
Tat tat Interaction of HIV-1 Tat with RHII/Gu in T-cells is identified by a proteomic strategy based on affinity chromatography coupled with mass spectrometry 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

Homology

Clone Names

  • DKFZp686F21172

Gene Ontology Provided by GOA

Function Evidence Code Pubs
7SK snRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
ATP binding IEA
Inferred from Electronic Annotation
more info
 
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA helicase activity IDA
Inferred from Direct Assay
more info
PubMed 
RNA helicase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
double-stranded RNA binding IEA
Inferred from Electronic Annotation
more info
 
identical protein binding IEA
Inferred from Electronic Annotation
more info
 
miRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
rRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
snoRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
defense response to virus IEA
Inferred from Electronic Annotation
more info
 
innate immune response IEA
Inferred from Electronic Annotation
more info
 
osteoblast differentiation HDA PubMed 
positive regulation of I-kappaB kinase/NF-kappaB signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of gene expression, epigenetic TAS
Traceable Author Statement
more info
 
positive regulation of myeloid dendritic cell cytokine production IEA
Inferred from Electronic Annotation
more info
 
rRNA processing IEA
Inferred from Electronic Annotation
more info
 
response to exogenous dsRNA IEA
Inferred from Electronic Annotation
more info
 
transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cytosol ISS
Inferred from Sequence or Structural Similarity
more info
 
membrane HDA PubMed 
mitochondrion IEA
Inferred from Electronic Annotation
more info
 
nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
nucleolar RNA helicase 2
Names
DEAD (Asp-Glu-Ala-Asp) box helicase 21
DEAD (Asp-Glu-Ala-Asp) box polypeptide 21
DEAD box protein 21
DEAD-box helicase 21
DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 21
Gu protein
RH II/Gu
RNA helicase II/Gu alpha
gu-alpha
nucleolar RNA helicase Gu
nucleolar RNA helicase II
NP_001243839.1
NP_004719.2
XP_011538638.1
XP_016872399.1

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_001256910.2NP_001243839.1  nucleolar RNA helicase 2 isoform 2

    See identical proteins and their annotated locations for NP_001243839.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5'UTR and has multiple coding region differences, compared to variant 1. These differences cause translation initiation at a downstream AUG and result in an isoform (2) with a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AA446317, AL359844
    Consensus CDS
    CCDS73144.1
    UniProtKB/Swiss-Prot
    Q9NR30
    Related
    ENSP00000480334.1, ENST00000620315.1
    Conserved Domains (5) summary
    PTZ00424
    Location:100486
    PTZ00424; helicase 45; Provisional
    cd00079
    Location:343470
    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:120327
    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 ...
    cd12936
    Location:549641
    GUCT_RHII_Gualpha_beta; RNA-binding GUCT domain found in vertebrate RNA helicase II/Gualpha (RH-II/Gualpha), RNA helicase II/Gubeta (RH-II/Gubeta) and similar proteins
    cl17173
    Location:650703
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  2. NM_004728.4NP_004719.2  nucleolar RNA helicase 2 isoform 1

    See identical proteins and their annotated locations for NP_004719.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AA446317, AL359844, BC008071, DW408689
    Consensus CDS
    CCDS31211.1
    UniProtKB/Swiss-Prot
    Q9NR30
    Related
    ENSP00000346120.4, ENST00000354185.9
    Conserved Domains (3) summary
    COG0513
    Location:178587
    SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    cd12936
    Location:617709
    GUCT_RHII_Gualpha_beta; RNA-binding GUCT domain found in vertebrate RNA helicase II/Gualpha (RH-II/Gualpha), RNA helicase II/Gubeta (RH-II/Gubeta) and similar proteins
    cl17173
    Location:718771
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

    Range
    68956131..68985068
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011540336.1XP_011538638.1  nucleolar RNA helicase 2 isoform X1

    Conserved Domains (5) summary
    smart00487
    Location:201391
    DEXDc; DEAD-like helicases superfamily
    cd00268
    Location:188395
    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 ...
    cd12936
    Location:563655
    GUCT_RHII_Gualpha_beta; RNA-binding GUCT domain found in vertebrate RNA helicase II/Gualpha (RH-II/Gualpha), RNA helicase II/Gubeta (RH-II/Gubeta) and similar proteins
    cl17173
    Location:664717
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    cl21455
    Location:462484
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  2. XM_017016910.2XP_016872399.1  nucleolar RNA helicase 2 isoform X2

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