Human Gene DHX29 (uc003jpx.3) Description and Page Index
  Description: Homo sapiens DEAH (Asp-Glu-Ala-His) box polypeptide 29 (DHX29), mRNA.
RefSeq Summary (NM_019030): This gene encodes a member of the DEAH (Asp-Glu-Ala-His) subfamily of proteins, part of the DEAD (Asp-Glu-Ala-Asp) box family of RNA helicases. The encoded protein functions in translation initiation, and is specifically required for ribosomal scanning across stable mRNA secondary structures during initiation codon selection. This protein may also play a role in sensing virally derived cytosolic nucleic acids. Knockdown of this gene results in reduced protein translation and impaired proliferation of cancer cells. [provided by RefSeq, Sep 2016].
Transcript (Including UTRs)
   Position: hg19 chr5:54,552,073-54,603,521 Size: 51,449 Total Exon Count: 27 Strand: -
Coding Region
   Position: hg19 chr5:54,552,316-54,603,401 Size: 51,086 Coding Exon Count: 27 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:54,552,073-54,603,521)mRNA (may differ from genome)Protein (1369 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: DHX29_HUMAN
DESCRIPTION: RecName: Full=ATP-dependent RNA helicase DHX29; EC=3.6.4.13; AltName: Full=DEAH box protein 29; AltName: Full=Nucleic acid helicase DDXx;
FUNCTION: ATP-binding RNA helicase involved in translation initiation. Required for efficient initiation on mammalian mRNAs with structured 5'-UTRs by promoting efficient NTPase-dependent 48S complex formation. Specifically binds to the 40S ribosome near the mRNA entrance. Does not possess a processive helicase activity.
CATALYTIC ACTIVITY: ATP + H(2)O = ADP + phosphate.
SUBCELLULAR LOCATION: Cytoplasm (Probable).
SIMILARITY: Belongs to the DEAD box helicase family. DEAH subfamily.
SIMILARITY: Contains 1 helicase ATP-binding domain.
SIMILARITY: Contains 1 helicase C-terminal domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): DHX29
CDC HuGE Published Literature: DHX29

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 12.71 RPKM in Cells - Transformed fibroblasts
Total median expression: 442.24 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -50.32120-0.419 Picture PostScript Text
3' UTR -41.60243-0.171 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011545 - DNA/RNA_helicase_DEAD/DEAH_N
IPR002464 - DNA/RNA_helicase_DEAH_CS
IPR011709 - DUF1605
IPR007502 - Helicase-assoc_dom
IPR014001 - Helicase_ATP-bd
IPR001650 - Helicase_C

Pfam Domains:
PF00270 - DEAD/DEAH box helicase
PF00271 - Helicase conserved C-terminal domain
PF04408 - Helicase associated domain (HA2)
PF07717 - Oligonucleotide/oligosaccharide-binding (OB)-fold

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on Q7Z478
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003743 translation initiation factor activity
GO:0004004 ATP-dependent RNA helicase activity
GO:0004386 helicase activity
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0043024 ribosomal small subunit binding
GO:0045296 cadherin binding

Biological Process:
GO:0006396 RNA processing
GO:0006412 translation
GO:0006413 translational initiation

Cellular Component:
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0016282 eukaryotic 43S preinitiation complex


-  Descriptions from all associated GenBank mRNAs
  AL834496 - Homo sapiens mRNA; cDNA DKFZp761B122 (from clone DKFZp761B122).
BC035988 - Homo sapiens DEAH (Asp-Glu-Ala-His) box polypeptide 29, mRNA (cDNA clone IMAGE:4246332), partial cds.
AK025145 - Homo sapiens cDNA: FLJ21492 fis, clone COL05554, highly similar to HST000015 Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 48814.
AL079292 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 48814.
BX648688 - Homo sapiens mRNA; cDNA DKFZp686I0138 (from clone DKFZp686I0138).
BX648101 - Homo sapiens mRNA; cDNA DKFZp686N2027 (from clone DKFZp686N2027).
BC056219 - Homo sapiens DEAH (Asp-Glu-Ala-His) box polypeptide 29, mRNA (cDNA clone MGC:51309 IMAGE:5315083), complete cds.
AY036974 - Homo sapiens nucleic acid helicase DDXx mRNA, complete cds.
AF070639 - Homo sapiens clone 24700 unknown mRNA, partial cds.
BX648269 - Homo sapiens mRNA; cDNA DKFZp686A12119 (from clone DKFZp686A12119).
BX649135 - Homo sapiens mRNA; cDNA DKFZp686C2356 (from clone DKFZp686C2356).
JD240625 - Sequence 221649 from Patent EP1572962.
JD113106 - Sequence 94130 from Patent EP1572962.
KJ898995 - Synthetic construct Homo sapiens clone ccsbBroadEn_08389 DHX29 gene, encodes complete protein.
AB590960 - Synthetic construct DNA, clone: pFN21AE0898, Homo sapiens DHX29 gene for DEAH (Asp-Glu-Ala-His) box polypeptide 29, without stop codon, in Flexi system.
AK308332 - Homo sapiens cDNA, FLJ98280.
JD360260 - Sequence 341284 from Patent EP1572962.
JD316015 - Sequence 297039 from Patent EP1572962.
JD222721 - Sequence 203745 from Patent EP1572962.
JD373776 - Sequence 354800 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: DDX29, DHX29_HUMAN, NM_019030, NP_061903, O75549, Q63HN0, Q63HN3, Q7Z478, Q8IWW2, Q8N3A1, Q9UMH2
UCSC ID: uc003jpx.3
RefSeq Accession: NM_019030
Protein: Q7Z478 (aka DHX29_HUMAN)
CCDS: CCDS34158.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_019030.2
exon count: 27CDS single in 3' UTR: no RNA size: 4491
ORF size: 4110CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 8408.00frame shift in genome: no % Coverage: 99.60
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.