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RAD54B Gene(Protein Coding)

RAD54 Homolog B (S. Cerevisiae)

GCID:
GC08M094371
GIFtS:
58
Genes Participants
UDN Logo

Aliases for RAD54B Gene

Aliases for RAD54B Gene

  • RAD54 Homolog B (S. Cerevisiae) 2 3 5
  • DNA Repair And Recombination Protein RAD54B 3
  • RAD54 Homolog B 4
  • EC 3.6.4.- 4
  • EC 3.6.1 61
  • RDH54 3

External Ids for RAD54B Gene

Previous GeneCards Identifiers for RAD54B Gene

  • GC08M094130
  • GC08M095230
  • GC08M095052
  • GC08M095340
  • GC08M095453
  • GC08M095384
  • GC08M090593

Summaries for RAD54B Gene

Entrez Gene Summary for RAD54B Gene

  • The protein encoded by this gene belongs to the DEAD-like helicase superfamily. It shares similarity with Saccharomyces cerevisiae RAD54 and RDH54, both of which are involved in homologous recombination and repair of DNA. This protein binds to double-stranded DNA, and displays ATPase activity in the presence of DNA. This gene is highly expressed in testis and spleen, which suggests active roles in meiotic and mitotic recombination. Homozygous mutations of this gene were observed in primary lymphoma and colon cancer. [provided by RefSeq, Jul 2008]

GeneCards Summary for RAD54B Gene

RAD54B (RAD54 Homolog B (S. Cerevisiae)) is a Protein Coding gene. Diseases associated with RAD54B include Lymphoma, Non-Hodgkin and Colorectal Cancer. Among its related pathways are Resolution of D-loop Structures through Synthesis-Dependent Strand Annealing (SDSA). GO annotations related to this gene include hydrolase activity and RNA helicase activity. An important paralog of this gene is FSBP.

UniProtKB/Swiss-Prot for RAD54B Gene

  • Involved in DNA repair and mitotic recombination. May play an active role in recombination processes in concert with other members of the RAD52 epistasis group.

Gene Wiki entry for RAD54B Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RAD54B Gene

Genomics for RAD54B Gene

Products:

  1. Regulatory Element

Regulatory Elements for RAD54B Gene

Enhancers for RAD54B 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
GH08G094434 1.5 Ensembl ENCODE dbSUPER 11.2 +38.1 38147 5.8 PKNOX1 WRNIP1 YY1 TCF12 GATA2 TBX21 SMARCB1 SMARCA4 PBX2 HMBOX1 RAD54B VIRMA ENSG00000253704 GC08M094432 FSBP
GH08G093990 1.7 FANTOM5 Ensembl ENCODE 9.3 +483.7 483701 1.8 HDGF PKNOX1 ATF1 SIN3A BRCA1 ZBTB7B GLIS2 ELK1 ZNF143 FOS RAD54B ENSG00000275386 GC08M094039
GH08G094439 1.2 Ensembl ENCODE 11.2 +34.2 34166 2.1 PKNOX1 MLX ARID4B SIN3A DMAP1 TCF12 GATA2 ZNF143 ZNF207 MXD4 RAD54B FSBP GC08M094432 GC08P094456
GH08G094416 1.2 Ensembl ENCODE 10.8 +57.3 57328 2.2 ELF3 PKNOX1 NFRKB FEZF1 RAD21 ZBTB40 RARA RFX5 GATA2 ZNF366 RAD54B VIRMA ENSG00000280123 GC08P094395
GH08G094552 1.2 ENCODE 10.7 -78.5 -78493 2.9 CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC VIRMA RAD54B LOC101926977
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RAD54B on UCSC Golden Path with GeneCards custom track

Promoters for RAD54B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000227201 115 1601 HDGF PKNOX1 MLX WRNIP1 ARID4B SIN3A ZNF2 ZBTB7B ZNF766 ZNF143

Transcription factor binding sites by QIAGEN in the RAD54B gene promoter:

Genomic Location for RAD54B Gene

Chromosome:
8
Start:
94,371,960 bp from pter
End:
94,475,115 bp from pter
Size:
103,156 bases
Orientation:
Minus strand

Genomic View for RAD54B Gene

Genes around RAD54B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RAD54B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RAD54B Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for RAD54B Gene

Proteins for RAD54B Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for RAD54B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y620-RA54B_HUMAN
    Recommended name:
    DNA repair and recombination protein RAD54B
    Protein Accession:
    Q9Y620
    Secondary Accessions:
    • F6WBS8

    Protein attributes for RAD54B Gene

    Size:
    910 amino acids
    Molecular mass:
    102967 Da
    Quaternary structure:
    • Interacts with RAD51 through the NH2-terminal domain. Immunoprecipitation experiments show that the interaction is constitutive and not induced by ionizing radiation. The interaction may be indirect.

    Alternative splice isoforms for RAD54B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RAD54B Gene

Protein Expression for RAD54B Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Selected DME Specific Peptides for RAD54B Gene

Q9Y620:
  • GTIEEKI
  • IYRLLTT
  • DEMGLGKT
  • KEFQKWL
  • GGVGLNL
  • MGLGKTL
  • RVWRDGQK

Post-translational modifications for RAD54B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RAD54B Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Abcam antibodies for RAD54B

Domains & Families for RAD54B Gene

Protein Domains for RAD54B Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for RAD54B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y620

UniProtKB/Swiss-Prot:

RA54B_HUMAN :
  • Belongs to the SNF2/RAD54 helicase family.
Family:
  • Belongs to the SNF2/RAD54 helicase family.
genes like me logo Genes that share domains with RAD54B: view

No data available for Gene Families for RAD54B Gene

Function for RAD54B Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for RAD54B Gene

GENATLAS Biochemistry:
yeast (S cerevisiae) RAD54 homolog,recombination gene,highly expressed in testis and spleen,homozygously mutated in primary lymphoma and colon cancer
UniProtKB/Swiss-Prot Function:
Involved in DNA repair and mitotic recombination. May play an active role in recombination processes in concert with other members of the RAD52 epistasis group.

Enzyme Numbers (IUBMB) for RAD54B Gene

Gene Ontology (GO) - Molecular Function for RAD54B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003678 DNA helicase activity TAS 10362364
GO:0003724 RNA helicase activity TAS 10362364
GO:0004386 helicase activity IEA --
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with RAD54B: view
genes like me logo Genes that share phenotypes with RAD54B: view

Human Phenotype Ontology for RAD54B Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for RAD54B Gene

MGI Knock Outs for RAD54B:

Animal Model Products

CRISPR Products

miRNA for RAD54B Gene

miRTarBase miRNAs that target RAD54B

Inhibitory RNA Products

Clone Products

No data available for Transcription Factor Targets and HOMER Transcription for RAD54B Gene

Localization for RAD54B Gene

Subcellular locations from UniProtKB/Swiss-Prot for RAD54B Gene

Nucleus.

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 RAD54B gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for RAD54B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with RAD54B: view

Pathways & Interactions for RAD54B Gene

genes like me logo Genes that share pathways with RAD54B: view

Pathways by source for RAD54B Gene

1 BioSystems pathway for RAD54B Gene
1 KEGG pathway for RAD54B Gene

Gene Ontology (GO) - Biological Process for RAD54B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000724 double-strand break repair via homologous recombination IDA 16428451
GO:0006281 DNA repair IEA --
GO:0006312 mitotic recombination TAS 10362364
GO:0006974 cellular response to DNA damage stimulus IEA --
GO:0007131 reciprocal meiotic recombination TAS 10362364
genes like me logo Genes that share ontologies with RAD54B: view

No data available for SIGNOR curated interactions for RAD54B Gene

Drugs & Compounds for RAD54B Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for RAD54B Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for RAD54B Gene

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

Unigene Clusters for RAD54B Gene

RAD54 homolog B (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RAD54B Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b
SP1: - -
SP2: - -
SP3:
SP4:
SP5: -
SP6:

Relevant External Links for RAD54B Gene

GeneLoc Exon Structure for
RAD54B
ECgene alternative splicing isoforms for
RAD54B

Expression for RAD54B Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RAD54B Gene

mRNA expression in normal human tissues for RAD54B Gene
mRNA expression by BioGPS for RAD54B GenemRNA expression by GTEx for RAD54B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RAD54B Gene



NURSA nuclear receptor signaling pathways regulating expression of RAD54B Gene:

RAD54B

SOURCE GeneReport for Unigene cluster for RAD54B Gene:

Hs.744229

mRNA Expression by UniProt/SwissProt for RAD54B Gene:

Q9Y620-RA54B_HUMAN
Tissue specificity: Abundantly expressed in testis and spleen. Relatively low levels observed in thymus, prostate, ovary and colon.

Phenotype-based relationships between genes and organs from Gene ORGANizer for RAD54B Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • digestive
  • immune
  • reproductive
  • urinary
Organs:
Abdomen:
  • intestine
  • kidney
  • large intestine
  • stomach
Pelvis:
  • anus
  • rectum
  • ureter
  • urethra
  • urinary bladder
  • uterus
General:
  • blood
  • white blood cell
genes like me logo Genes that share expression patterns with RAD54B: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein tissue co-expression partners and Evidence on tissue expression from TISSUES for RAD54B Gene

Orthologs for RAD54B Gene

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

Orthologs for RAD54B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia RAD54B 34 35
  • 99.63 (n)
dog
(Canis familiaris)
 Mammalia RAD54B 34 35
  • 89.66 (n)
cow
(Bos Taurus)
 Mammalia RAD54B 34 35
  • 89.46 (n)
mouse
(Mus musculus)
 Mammalia Rad54b 34 16 35
  • 83.07 (n)
rat
(Rattus norvegicus)
 Mammalia Rad54b 34
  • 81.35 (n)
oppossum
(Monodelphis domestica)
 Mammalia RAD54B 35
  • 77 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia RAD54B 35
  • 77 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves RAD54B 34 35
  • 72.2 (n)
lizard
(Anolis carolinensis)
 Reptilia RAD54B 35
  • 71 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia rad54b 34
  • 65.83 (n)
Str.5565 34
African clawed frog
(Xenopus laevis)
 Amphibia Xl.32066 34
zebrafish
(Danio rerio)
 Actinopterygii rad54b 34 35
  • 57.95 (n)
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP006945 34
  • 48.5 (n)
worm
(Caenorhabditis elegans)
 Secernentea Y116A8C.13 36
  • 41 (a)
K. lactis yeast
(Kluyveromyces lactis)
 Saccharomycetes KLLA0F11814g 34
  • 55.53 (n)
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes RDH54 34 37
  • 49.37 (n)
RAD54 35
  • 33 (a)
 OneToMany
A. gosspyii yeast
(Ashbya gossypii)
 Saccharomycetes AGOS_AGL212W 34
  • 48.74 (n)
fission yeast
(Schizosaccharomyces pombe)
 Schizosaccharomycetes rdh54 34
  • 49.9 (n)
Species where no ortholog for RAD54B was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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 (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)
  • wheat (Triticum aestivum)

Evolution for RAD54B Gene

ENSEMBL:
Gene Tree for RAD54B (if available)
TreeFam:
Gene Tree for RAD54B (if available)

Paralogs for RAD54B Gene

Paralogs for RAD54B Gene

(2) SIMAP similar genes for RAD54B Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with RAD54B: view

Variants for RAD54B Gene

Sequence variations from dbSNP and Humsavar for RAD54B Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type
rs114216685 Pathogenic, A non-Hodgkin lymphoma sample 94,391,640(+) GGTGA(C/T)TGCAC reference, missense
rs119490107 Pathogenic, A colon cancer sample 94,399,540(-) CCCTG(G/T)ATCAA reference, missense
rs1000017168 -- 94,466,444(+) GCTCT(A/G)TCACC intron-variant
rs1000057469 -- 94,419,438(+) AGAAG(G/T)CGGAG intron-variant
rs1000068116 -- 94,466,698(+) CACTG(C/G)ACCCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RAD54B Gene

Variant ID Type Subtype PubMed ID
dgv2104e212 CNV loss 25503493
dgv2105e212 CNV loss 25503493
esv3572904 CNV loss 25503493
esv3572905 CNV loss 25503493
esv3572908 CNV loss 25503493
esv3618077 CNV loss 21293372
nsv1031480 CNV gain 25217958
nsv611749 CNV loss 21841781
nsv6313 CNV insertion 18451855
nsv831401 CNV loss 17160897

Variation tolerance for RAD54B Gene

Residual Variation Intolerance Score: 68.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.05; 50.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RAD54B Gene

Human Gene Mutation Database (HGMD)
RAD54B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
RAD54B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RAD54B Gene

Disorders for RAD54B Gene

MalaCards: The human disease database

(2) MalaCards diseases for RAD54B Gene - From: OMIM, ClinVar, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
lymphoma, non-hodgkin
  • lymphoma, non-hodgkin, somatic
colorectal cancer
  • colorectal cancer, somatic
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for RAD54B

Genetic Association Database (GAD)
RAD54B
Human Genome Epidemiology (HuGE) Navigator
RAD54B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RAD54B
genes like me logo Genes that share disorders with RAD54B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RAD54B Gene

Publications for RAD54B Gene

  1. A novel human Rad54 homologue, Rad54B, associates with Rad51. (PMID: 10851248) Tanaka K. … Miyagawa K. (J. Biol. Chem. 2000) 2 3 4 22 64
  2. Mutations of a novel human RAD54 homologue, RAD54B, in primary cancer. (PMID: 10362364) Hiramoto T. … Kamiya K. (Oncogene 1999) 2 3 4 22 64
  3. Human Rad54B is a double-stranded DNA-dependent ATPase and has biochemical properties different from its structural homolog in yeast, Tid1/Rdh54. (PMID: 11884632) Tanaka K. … Miyagawa K. (Nucleic Acids Res. 2002) 3 4 22 64
  4. Variation within DNA repair pathway genes and risk of multiple sclerosis. (PMID: 20522537) Briggs F.B. … Barcellos L.F. (Am. J. Epidemiol. 2010) 3 46 64
  5. Gamma-radiation sensitivity and polymorphisms in RAD51L1 modulate glioma risk. (PMID: 20610542) Liu Y. … Bondy M.L. (Carcinogenesis 2010) 3 46 64

Products for RAD54B Gene

Sources for RAD54B Gene

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