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Aliases for DDX53 Gene

Aliases for DDX53 Gene

  • DEAD-Box Helicase 53 2 3 5
  • Cancer/Testis Antigen 26 2 3 4
  • DEAD (Asp-Glu-Ala-Asp) Box Polypeptide 53 2 3
  • Cancer-Associated Gene Protein 3 4
  • DEAD Box Protein 53 3 4
  • CAGE 3 4
  • CT26 3 4
  • Probable ATP-Dependent RNA Helicase DDX53 3
  • Cancer Associated Gene 2
  • DEAD-Box Protein CAGE 3
  • DEAD Box Protein CAGE 4
  • EC 3.6.4.13 4
  • EC 3.6.1 56

External Ids for DDX53 Gene

Previous GeneCards Identifiers for DDX53 Gene

  • GC0XU900468
  • GC0XP022379
  • GC0XP022777
  • GC0XP022927
  • GC0XP020758

Summaries for DDX53 Gene

Entrez Gene Summary for DDX53 Gene

  • This intronless gene encodes a protein which contains several domains found in members of the DEAD-box helicase protein family. Other members of this protein family participate in ATP-dependent RNA unwinding. [provided by RefSeq, Sep 2011]

GeneCards Summary for DDX53 Gene

DDX53 (DEAD-Box Helicase 53) is a Protein Coding gene. Diseases associated with DDX53 include Non-Secretory Myeloma and Gastrointestinal System Cancer. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and ATP-dependent RNA helicase activity. An important paralog of this gene is DDX43.

Additional gene information for DDX53 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DDX53 Gene

Genomics for DDX53 Gene

GeneHancer (GH) Regulatory Elements for DDX53 Gene

Promoters and enhancers for DDX53 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH0XI022999 Promoter 0.9 EPDnew 550.8 0.0 -20 0.1 ZNF639 ATF1 RFX1 L3MBTL2 ELF1 ZBTB40 E4F1 GABPA PHF20 GABPB1 DDX53 PTCHD1-AS ENSG00000237019
GH0XI023012 Enhancer 0.4 ENCODE 0.4 +12.4 12428 0.1 RCOR1 CHD2 PIR35725 DDX53 PTCHD1-AS
GH0XI022950 Enhancer 0.4 Ensembl 0.2 -49.1 -49060 0.2 IKZF1 EBF1 DDX53 ENSG00000237019 PTCHD1-AS
GH0XI022799 Enhancer 0.7 Ensembl ENCODE 0.1 -199.2 -199212 1.6 JUND MAX BACH1 NFE2 ENSG00000237019 DDX53 PTCHD1-AS
GH0XI022968 Enhancer 0.2 ENCODE 0.3 -30.5 -30464 1.1 DDX53 ENSG00000237019 PTCHD1-AS
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around DDX53 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the DDX53 gene promoter:

Genomic Locations for DDX53 Gene

Genomic Locations for DDX53 Gene
chrX:22,999,961-23,003,589
(GRCh38/hg38)
Size:
3,629 bases
Orientation:
Plus strand
chrX:23,018,087-23,020,206
(GRCh37/hg19)

Genomic View for DDX53 Gene

Genes around DDX53 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DDX53 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DDX53 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DDX53 Gene

Proteins for DDX53 Gene

  • Protein details for DDX53 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86TM3-DDX53_HUMAN
    Recommended name:
    Probable ATP-dependent RNA helicase DDX53
    Protein Accession:
    Q86TM3
    Secondary Accessions:
    • Q0D2N2
    • Q6NVV4

    Protein attributes for DDX53 Gene

    Size:
    631 amino acids
    Molecular mass:
    71154 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for DDX53 Gene

neXtProt entry for DDX53 Gene

Selected DME Specific Peptides for DDX53 Gene

Q86TM3:
  • VLTPTREL
  • TPTRELA
  • IIATPGR
  • LVIDEAD
  • AQTGTGKT
  • DEADKML
  • IATPGRL

Post-translational modifications for DDX53 Gene

No Post-translational modifications

Other Protein References for DDX53 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for DDX53 Gene

Gene Families for DDX53 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for DDX53 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q86TM3

UniProtKB/Swiss-Prot:

DDX53_HUMAN :
  • Belongs to the DEAD box helicase family.
Family:
  • Belongs to the DEAD box helicase family.
genes like me logo Genes that share domains with DDX53: view

Function for DDX53 Gene

Molecular function for DDX53 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + H(2)O = ADP + phosphate.

Enzyme Numbers (IUBMB) for DDX53 Gene

Phenotypes From GWAS Catalog for DDX53 Gene

Gene Ontology (GO) - Molecular Function for DDX53 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA --
GO:0004004 ATP-dependent RNA helicase activity IBA --
GO:0004386 helicase activity IEA --
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with DDX53: view
genes like me logo Genes that share phenotypes with DDX53: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DDX53 Gene

Localization for DDX53 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DDX53 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for DDX53 gene
Compartment Confidence
nucleus 5
cytosol 3
plasma membrane 2
extracellular 2
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
lysosome 1
endosome 1

Gene Ontology (GO) - Cellular Components for DDX53 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005730 nucleolus IBA --
GO:0005737 cytoplasm IBA --
genes like me logo Genes that share ontologies with DDX53: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for DDX53 Gene

Pathways & Interactions for DDX53 Gene

SuperPathways for DDX53 Gene

No Data Available

Gene Ontology (GO) - Biological Process for DDX53 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010501 RNA secondary structure unwinding IBA --
genes like me logo Genes that share ontologies with DDX53: view

No data available for Pathways by source and SIGNOR curated interactions for DDX53 Gene

Drugs & Compounds for DDX53 Gene

(3) Drugs for DDX53 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
ATP Investigational Nutra Agonist 0

(1) Additional Compounds for DDX53 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 DDX53: view

Transcripts for DDX53 Gene

mRNA/cDNA for DDX53 Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(8) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for DDX53 Gene

DEAD (Asp-Glu-Ala-Asp) box polypeptide 53:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for DDX53 Gene

No ASD Table

Relevant External Links for DDX53 Gene

GeneLoc Exon Structure for
DDX53
ECgene alternative splicing isoforms for
DDX53

Expression for DDX53 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DDX53 Gene

mRNA differential expression in normal tissues according to GTEx for DDX53 Gene

This gene is overexpressed in Testis (x51.7).

Protein differential expression in normal tissues from HIPED for DDX53 Gene

This gene is overexpressed in Testis (24.9), NK cells (21.7), Ovary (9.5), Liver (6.7), and Adipocyte (6.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for DDX53 Gene



Protein tissue co-expression partners for DDX53 Gene

NURSA nuclear receptor signaling pathways regulating expression of DDX53 Gene:

DDX53

SOURCE GeneReport for Unigene cluster for DDX53 Gene:

Hs.434416

mRNA Expression by UniProt/SwissProt for DDX53 Gene:

Q86TM3-DDX53_HUMAN
Tissue specificity: Expressed in testis. Wide expression in various cancer tissues and cancer cell lines.

Evidence on tissue expression from TISSUES for DDX53 Gene

  • Intestine(2.8)
  • Blood(2.6)
  • Lung(2.6)
  • Spleen(2.6)
  • Liver(2.3)
  • Lymph node(2.3)
  • Bone marrow(2)
genes like me logo Genes that share expression patterns with DDX53: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for DDX53 Gene

Orthologs for DDX53 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for DDX53 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DDX53 33 34
  • 98.57 (n)
dog
(Canis familiaris)
Mammalia DDX53 33
  • 77.67 (n)
cow
(Bos Taurus)
Mammalia DDX53 34
  • 68 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 63 (a)
ManyToMany
-- 34
  • 60 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 56 (a)
ManyToMany
-- 34
  • 56 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 34
  • 54 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 55 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii ddx43 34
  • 46 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG7878 34
  • 39 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea Y54G11A.3 34
  • 38 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DBP2 34
  • 35 (a)
OneToMany
Species where no ortholog for DDX53 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for DDX53 Gene

ENSEMBL:
Gene Tree for DDX53 (if available)
TreeFam:
Gene Tree for DDX53 (if available)

Paralogs for DDX53 Gene

Paralogs for DDX53 Gene

(15) SIMAP similar genes for DDX53 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for DDX53 Gene

genes like me logo Genes that share paralogs with DDX53: view

Variants for DDX53 Gene

Sequence variations from dbSNP and Humsavar for DDX53 Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs1057518429 uncertain-significance, not specified 23,000,869(+) G/A coding_sequence_variant, missense_variant
rs1064795781 uncertain-significance, not specified 23,000,545(+) G/A coding_sequence_variant, missense_variant
rs1000673073 -- 22,999,729(+) C/T upstream_transcript_variant
rs1000745471 -- 23,001,826(+) A/G coding_sequence_variant, missense_variant
rs1001025878 -- 22,999,924(+) C/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for DDX53 Gene

Variant ID Type Subtype PubMed ID
esv3573648 CNV loss 25503493

Variation tolerance for DDX53 Gene

Residual Variation Intolerance Score: 72.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.38; 85.49% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DDX53 Gene

Human Gene Mutation Database (HGMD)
DDX53
SNPedia medical, phenotypic, and genealogical associations of SNPs for
DDX53

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DDX53 Gene

Disorders for DDX53 Gene

MalaCards: The human disease database

(3) MalaCards diseases for DDX53 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
non-secretory myeloma
gastrointestinal system cancer
  • digestive system cancer
colorectal cancer
  • crc
- elite association - COSMIC cancer census association via MalaCards
Search DDX53 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for DDX53

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with DDX53: view

No data available for UniProtKB/Swiss-Prot and Genatlas for DDX53 Gene

Publications for DDX53 Gene

  1. Functional impact of global rare copy number variation in autism spectrum disorders. (PMID: 20531469) Pinto D … Betancur C (Nature 2010) 3 44 58
  2. Comparative structural analysis of human DEAD-box RNA helicases. (PMID: 20941364) Schütz P … Schüler H (PloS one 2010) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Identification and characterization of a novel cancer/testis antigen gene CAGE. (PMID: 11922625) Cho B … Jeoung DI (Biochemical and biophysical research communications 2002) 3 4 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for DDX53 Gene

Sources for DDX53 Gene

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