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Aliases for DDX54 Gene

Aliases for DDX54 Gene

  • DEAD-Box Helicase 54 2 3 5
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 54 2 3
  • ATP-Dependent RNA Helicase DP97 3 4
  • DEAD Box RNA Helicase 97 KDa 3 4
  • DEAD Box Protein 54 3 4
  • ATP-Dependent RNA Helicase DDX54 3
  • DEAD Box Helicase 97 KDa 3
  • EC 3.6.4.13 4
  • EC 3.6.1 61
  • DP97 3

External Ids for DDX54 Gene

Previous GeneCards Identifiers for DDX54 Gene

  • GC12M113377
  • GC12M112006
  • GC12M112057
  • GC12M113595
  • GC12M110607
  • GC12M113596
  • GC12M113598

Summaries for DDX54 Gene

Entrez Gene Summary for DDX54 Gene

  • 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 nucleolar protein encoded by this gene interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. Alternative splice variants that encode different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for DDX54 Gene

DDX54 (DEAD-Box Helicase 54) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and RNA binding.

UniProtKB/Swiss-Prot for DDX54 Gene

  • Has RNA-dependent ATPase activity. Represses the transcriptional activity of nuclear receptors.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DDX54 Gene

Genomics for DDX54 Gene

Regulatory Elements for DDX54 Gene

Enhancers for DDX54 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12F113356 1.1 FANTOM5 ENCODE 21.6 -173.1 -173127 4.0 HDGF PKNOX1 MLX ARID4B SIN3A ZNF2 YY1 SP3 MXD4 REST PLBD2 DDX54 SDSL RBM19 RITA1 ENSG00000201208 SLC8B1 SDS
GH12F112407 0.7 ENCODE 19.4 +776.7 776746 3.0 PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF207 MAPKAPK5 DDX54 ADAM1A NAA25 SLC8B1 TMEM116 PTPN11 HECTD4 MIR6861
GH12F112417 0.2 ENCODE 18.3 +766.3 766330 2.4 HDGF PKNOX1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 ADAM1A DDX54 MAPKAPK5 TMEM116 GC12M112409 RPL6
GH12F113152 0.2 ENCODE 11.6 +32.8 32769 0.1 SCRT1 SP3 NR2F1 FOSL1 GLIS2 ZBTB48 ATF3 SCRT2 ZNF24 ZNF548 RBM19 ENSG00000201208 DDX54 RITA1 CFAP73 ENSG00000199899 GC12M113158
GH12F113154 0.5 ENCODE 11.6 +30.7 30699 0.2 SUZ12 POLR2A CTBP2 ENSG00000201208 DDX54 RITA1 ENSG00000199899 GC12M113158 CFAP73
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around DDX54 on UCSC Golden Path with GeneCards custom track

Promoters for DDX54 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000437310 179 2601 PKNOX1 CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 ZNF207

Genomic Location for DDX54 Gene

Chromosome:
12
Start:
113,157,173 bp from pter
End:
113,185,479 bp from pter
Size:
28,307 bases
Orientation:
Minus strand

Genomic View for DDX54 Gene

Genes around DDX54 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DDX54 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DDX54 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DDX54 Gene

Proteins for DDX54 Gene

  • Protein details for DDX54 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TDD1-DDX54_HUMAN
    Recommended name:
    ATP-dependent RNA helicase DDX54
    Protein Accession:
    Q8TDD1
    Secondary Accessions:
    • Q86YT8
    • Q9BRZ1

    Protein attributes for DDX54 Gene

    Size:
    881 amino acids
    Molecular mass:
    98595 Da
    Quaternary structure:
    • Interacts in a hormone-dependent manner with nuclear receptors.
    SequenceCaution:
    • Sequence=AAN59978.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Sequence of unknown origin in the N-terminal part.; Evidence={ECO:0000305};

    Alternative splice isoforms for DDX54 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DDX54 Gene

Post-translational modifications for DDX54 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for DDX54 Gene

Domains & Families for DDX54 Gene

Gene Families for DDX54 Gene

Suggested Antigen Peptide Sequences for DDX54 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8TDD1

UniProtKB/Swiss-Prot:

DDX54_HUMAN :
  • Contains 1 helicase ATP-binding domain.
  • Belongs to the DEAD box helicase family. DDX54/DBP10 subfamily.
Domain:
  • Contains 1 helicase ATP-binding domain.
  • Contains 1 helicase C-terminal domain.
Family:
  • Belongs to the DEAD box helicase family. DDX54/DBP10 subfamily.
genes like me logo Genes that share domains with DDX54: view

Function for DDX54 Gene

Molecular function for DDX54 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate.
UniProtKB/Swiss-Prot Function:
Has RNA-dependent ATPase activity. Represses the transcriptional activity of nuclear receptors.

Enzyme Numbers (IUBMB) for DDX54 Gene

Gene Ontology (GO) - Molecular Function for DDX54 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003714 transcription corepressor activity IDA 12466272
GO:0003723 RNA binding IEA --
GO:0004004 ATP-dependent RNA helicase activity IEA,IDA 12466272
GO:0004386 helicase activity IEA --
genes like me logo Genes that share ontologies with DDX54: view
genes like me logo Genes that share phenotypes with DDX54: view

Animal Models for DDX54 Gene

MGI Knock Outs for DDX54:

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for DDX54 Gene

Localization for DDX54 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DDX54 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for DDX54 Gene COMPARTMENTS Subcellular localization image for DDX54 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for DDX54 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 12466272
GO:0005730 nucleolus IEA,IDA 12466272
GO:0016020 membrane IDA 19946888
genes like me logo Genes that share ontologies with DDX54: view

Pathways & Interactions for DDX54 Gene

SuperPathways for DDX54 Gene

No Data Available

Gene Ontology (GO) - Biological Process for DDX54 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006396 RNA processing IDA 12466272
GO:0010501 RNA secondary structure unwinding IBA --
GO:0016070 RNA metabolic process IDA 12466272
genes like me logo Genes that share ontologies with DDX54: view

No data available for Pathways by source and SIGNOR curated interactions for DDX54 Gene

Drugs & Compounds for DDX54 Gene

(3) Drugs for DDX54 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
Adenosine triphosphate Approved Nutra 0

(1) Additional Compounds for DDX54 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Full agonist, Agonist 58-64-0
genes like me logo Genes that share compounds with DDX54: view

Transcripts for DDX54 Gene

Unigene Clusters for DDX54 Gene

DEAD (Asp-Glu-Ala-Asp) box polypeptide 54:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for DDX54 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18a · 18b ·
SP1: -
SP2:
SP3: - -
SP4: -
SP5: - -
SP6:
SP7: - - - - - - - - - - - - - - - - - - -
SP8:
SP9:
SP10:
SP11:
SP12: - -
SP13:
SP14: -
SP15:
SP16:
SP17:

ExUns: 18c ^ 19 ^ 20a · 20b · 20c · 20d ^ 21a · 21b ^ 22a · 22b · 22c ^ 23a · 23b · 23c · 23d · 23e
SP1:
SP2:
SP3: - - - - -
SP4:
SP5:
SP6:
SP7: - - - - - - -
SP8:
SP9:
SP10:
SP11: - - - -
SP12: -
SP13: -
SP14:
SP15:
SP16:
SP17:

Relevant External Links for DDX54 Gene

GeneLoc Exon Structure for
DDX54
ECgene alternative splicing isoforms for
DDX54

Expression for DDX54 Gene

mRNA expression in normal human tissues for DDX54 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for DDX54 Gene

This gene is overexpressed in CD8 Tcells (16.6), Peripheral blood mononuclear cells (14.9), and Lymph node (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for DDX54 Gene



Protein tissue co-expression partners for DDX54 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of DDX54 Gene:

DDX54

SOURCE GeneReport for Unigene cluster for DDX54 Gene:

Hs.506861
genes like me logo Genes that share expression patterns with DDX54: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for DDX54 Gene

Orthologs for DDX54 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for DDX54 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DDX54 34 35
  • 99.24 (n)
cow
(Bos Taurus)
Mammalia DDX54 34 35
  • 88.75 (n)
dog
(Canis familiaris)
Mammalia DDX54 34 35
  • 88.66 (n)
mouse
(Mus musculus)
Mammalia Ddx54 34 16 35
  • 83.16 (n)
rat
(Rattus norvegicus)
Mammalia Ddx54 34
  • 82.34 (n)
oppossum
(Monodelphis domestica)
Mammalia DDX54 35
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia DDX54 35
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves DDX54 34 35
  • 74.02 (n)
lizard
(Anolis carolinensis)
Reptilia DDX54 35
  • 69 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ddx54 34
  • 63.31 (n)
Str.2961 34
zebrafish
(Danio rerio)
Actinopterygii ddx54 34 35
  • 65.06 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007511 34
  • 55.6 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG32344 34 35
  • 54.48 (n)
worm
(Caenorhabditis elegans)
Secernentea Y94H6A.5 34 35
  • 49.74 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F24684g 34
  • 48.17 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL086W 34
  • 47.46 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DBP10 34 35 37
  • 46.42 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G77030 34
  • 50.13 (n)
rice
(Oryza sativa)
Liliopsida Os08g0416100 34
  • 51.41 (n)
Os.21287 34
bread mold
(Neurospora crassa)
Ascomycetes NCU07712 34
  • 55.56 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 50 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes dbp10 34
  • 47.97 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3817 34
Species where no ortholog for DDX54 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for DDX54 Gene

ENSEMBL:
Gene Tree for DDX54 (if available)
TreeFam:
Gene Tree for DDX54 (if available)

Paralogs for DDX54 Gene

No data available for Paralogs for DDX54 Gene

Variants for DDX54 Gene

Sequence variations from dbSNP and Humsavar for DDX54 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs10354 -- 113,162,992(+) CCAGG(A/G)CAGCG reference, missense
rs1048889 -- 113,159,061(-) CCGCC(C/T)GGAAC downstream-variant-500B, reference, missense, utr-variant-3-prime
rs11066504 -- 113,181,482(+) tattt(A/T)ttttt intron-variant
rs11066506 -- 113,183,606(+) CTGCC(A/C)CATTG intron-variant, upstream-variant-2KB
rs11066508 -- 113,185,521(+) GGGGG(G/T)AGGTG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for DDX54 Gene

Variant ID Type Subtype PubMed ID
dgv2884n54 CNV loss 21841781
esv3630792 CNV gain 21293372
esv3892265 CNV gain 25118596
esv996809 CNV deletion 20482838
nsv519540 CNV gain+loss 19592680

Variation tolerance for DDX54 Gene

Residual Variation Intolerance Score: 84.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.45; 82.02% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for DDX54 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DDX54

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DDX54 Gene

Disorders for DDX54 Gene

Relevant External Links for DDX54

Human Genome Epidemiology (HuGE) Navigator
DDX54
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
DDX54

No disorders were found for DDX54 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DDX54 Gene

Publications for DDX54 Gene

  1. Regulation of nuclear receptor transcriptional activity by a novel DEAD box RNA helicase (DP97). (PMID: 12466272) Rajendran R.R. … Katzenellenbogen B.S. (J. Biol. Chem. 2003) 2 3 4 22 64
  2. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A. … Diaz J.-J. (Mol. Biol. Cell 2002) 3 4 64
  5. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. (PMID: 25693804) Diner B.A. … Cristea I.M. (Mol. Cell Proteomics 2015) 3 64

Products for DDX54 Gene

Sources for DDX54 Gene

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