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Aliases for RBBP5 Gene

Aliases for RBBP5 Gene

  • RB Binding Protein 5, Histone Lysine Methyltransferase Complex Subunit 2 3 5
  • Retinoblastoma-Binding Protein RBQ-3 3 4
  • Retinoblastoma-Binding Protein 5 2 3
  • RBBP-5 3 4
  • RBQ3 3 4
  • SWD1, Set1c WD40 Repeat Protein, Homolog (S. Cerevisiae) 2
  • SWD1, Set1c WD40 Repeat Protein, Homolog 3
  • Retinoblastoma Binding Protein 5 2
  • SWD1 3

External Ids for RBBP5 Gene

Previous GeneCards Identifiers for RBBP5 Gene

  • GC01M202782
  • GC01M200517
  • GC01M201415
  • GC01M202233
  • GC01M201787
  • GC01M203321
  • GC01M176220

Summaries for RBBP5 Gene

Entrez Gene Summary for RBBP5 Gene

  • This gene encodes a ubiquitously expressed nuclear protein which belongs to a highly conserved subfamily of WD-repeat proteins. The encoded protein binds directly to retinoblastoma protein, which regulates cell proliferation. It interacts preferentially with the underphosphorylated retinoblastoma protein via the E1A-binding pocket B. Three alternatively spliced transcript variants that encode different protein isoforms have been described for this gene. [provided by RefSeq, Jul 2010]

GeneCards Summary for RBBP5 Gene

RBBP5 (RB Binding Protein 5, Histone Lysine Methyltransferase Complex Subunit) is a Protein Coding gene. Diseases associated with RBBP5 include Retinoblastoma and Kabuki Syndrome 1. Among its related pathways are Signaling by Wnt and Chromatin organization. GO annotations related to this gene include transcription regulatory region DNA binding and histone methyltransferase activity (H3-K4 specific).

UniProtKB/Swiss-Prot for RBBP5 Gene

  • In embryonic stem (ES) cells, plays a crucial role in the differentiation potential, particularly along the neural lineage, regulating gene induction and H3 Lys-4 methylation at key developmental loci, including that mediated by retinoic acid (By similarity). As part of the MLL1/MLL complex, involved in mono-, di- and trimethylation at Lys-4 of histone H3. Histone H3 Lys-4 methylation represents a specific tag for epigenetic transcriptional activation.

Gene Wiki entry for RBBP5 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RBBP5 Gene

Genomics for RBBP5 Gene

Regulatory Elements for RBBP5 Gene

Enhancers for RBBP5 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
GH01F205073 0.5 ENCODE 15.6 +48.4 48395 1.0 POLR2A ZBTB48 SUZ12 MYNN PRDM2 RBBP5 CNTN2 DSTYK GC01P205063 TMEM81
GH01F205144 0.8 Ensembl ENCODE 12.6 -23.1 -23060 2.1 TEAD1 GTF2E2 JUN CEBPB MAFG TEAD2 TEAD3 ZNF316 JUND MLLT1 DSTYK TMCC2 RBBP5 LOC101929459 NUAK2 GC01M205145 PIR35951 ENSG00000236108
GH01F205146 0.2 ENCODE 12.6 -25.4 -25377 1.0 ZNF316 GTF2E2 IKZF1 MAFG NFE2 ZNF600 EMSY MAFK NFE2L2 TMCC2 RBBP5 LOC101929459 DSTYK NUAK2 GC01M205145 PIR35951 GC01P205170
GH01F205282 1.5 FANTOM5 Ensembl ENCODE 12.2 -171.8 -171808 23.3 MLX CREB3L1 DMAP1 YY1 ZNF143 ZNF263 NFYC TBX21 MEF2D SSRP1 NUAK2 TMCC2 DSTYK LOC101929459 RBBP5 CDK18 MFSD4A CNTN2 TMEM81 KLHDC8A
GH01F205162 0.2 ENCODE 11.6 -40.5 -40526 0.2 DSTYK RBBP5 TMCC2 LOC101929459 CNTN2 GC01P205170 GC01M205145 PIR35951
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around RBBP5 on UCSC Golden Path with GeneCards custom track

Promoters for RBBP5 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000082307 22 2401 CREB3L1 ZFP64 FEZF1 DMAP1 YY1 ZNF143 ZNF263 SP3 TBX21 MEF2D

Genomic Location for RBBP5 Gene

Chromosome:
1
Start:
205,086,142 bp from pter
End:
205,122,022 bp from pter
Size:
35,881 bases
Orientation:
Minus strand

Genomic View for RBBP5 Gene

Genes around RBBP5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBBP5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBBP5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBBP5 Gene

Proteins for RBBP5 Gene

  • Protein details for RBBP5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15291-RBBP5_HUMAN
    Recommended name:
    Retinoblastoma-binding protein 5
    Protein Accession:
    Q15291
    Secondary Accessions:
    • A8K272
    • Q7Z6D8
    • Q8NDZ7

    Protein attributes for RBBP5 Gene

    Size:
    538 amino acids
    Molecular mass:
    59153 Da
    Quaternary structure:
    • Component of the SET1 complex, at least composed of the catalytic subunit (SETD1A or SETD1B), WDR5, WDR82, RBBP5, ASH2L/ASH2, CXXC1/CFP1, HCFC1 and DPY30. Core component of several methyltransferase-containing complexes including MLL1/MLL, MLL2/3 (also named ASCOM complex) and MLL4/WBP7. Each complex is at least composed of ASH2L, RBBP5, WDR5, DPY30, one or more specific histone methyltransferases (KMT2A/MLL1, KMT2D/MLL2, KMT2C/MLL3 and KMT2B/MLL4), and the facultative components PAGR1, BAP18, CHD8, E2F6, HCFC1, HCFC2, HSP70, INO80C, KDM6A, KANSL1, LAS1L, MAX, MCRS1, MEN1, MGA, MYST1/MOF, NCOA6, PAXIP1/PTIP, PELP1, PHF20, PRP31, RING2, RUVB1/TIP49A, RUVB2/TIP49B, SENP3, TAF1, TAF4, TAF6, TAF7, TAF9, TEX10 and alpha- and beta-tubulin. Interacts with WDR5 and ASH2L; the interaction is direct. Interacts with WDR82 and SETD1A. Part of a complex composed at least of ASCL2, EMSY, HCFC1, HSPA8, CCAR2, MATR3, MKI67, RBBP5, TUBB2A, WDR5 and ZNF335; this complex may have a histone H3-specific methyltransferase activity (By similarity).

    Three dimensional structures from OCA and Proteopedia for RBBP5 Gene

    Alternative splice isoforms for RBBP5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RBBP5 Gene

Post-translational modifications for RBBP5 Gene

  • Ubiquitination at Lys 244
  • Modification sites at PhosphoSitePlus

Other Protein References for RBBP5 Gene

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for RBBP5 (RBBP5)

No data available for DME Specific Peptides for RBBP5 Gene

Domains & Families for RBBP5 Gene

Gene Families for RBBP5 Gene

Protein Domains for RBBP5 Gene

Suggested Antigen Peptide Sequences for RBBP5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q15291

UniProtKB/Swiss-Prot:

RBBP5_HUMAN :
  • Contains 6 WD repeats.
Similarity:
  • Contains 6 WD repeats.
genes like me logo Genes that share domains with RBBP5: view

Function for RBBP5 Gene

Molecular function for RBBP5 Gene

GENATLAS Biochemistry:
RB1 binding nuclear protein 5,with homology to TF2B
UniProtKB/Swiss-Prot Function:
In embryonic stem (ES) cells, plays a crucial role in the differentiation potential, particularly along the neural lineage, regulating gene induction and H3 Lys-4 methylation at key developmental loci, including that mediated by retinoic acid (By similarity). As part of the MLL1/MLL complex, involved in mono-, di- and trimethylation at Lys-4 of histone H3. Histone H3 Lys-4 methylation represents a specific tag for epigenetic transcriptional activation.

Gene Ontology (GO) - Molecular Function for RBBP5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 12482968
GO:0018024 histone-lysine N-methyltransferase activity TAS --
GO:0035064 methylated histone binding IDA 15960975
GO:0042800 contributes_to histone methyltransferase activity (H3-K4 specific) IDA 17355966
GO:0044212 transcription regulatory region DNA binding IDA 16603732
genes like me logo Genes that share ontologies with RBBP5: view
genes like me logo Genes that share phenotypes with RBBP5: view

Animal Model Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RBBP5 Gene

Localization for RBBP5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBBP5 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RBBP5 Gene COMPARTMENTS Subcellular localization image for RBBP5 gene
Compartment Confidence
nucleus 5
cytosol 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for RBBP5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 15199122
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA --
GO:0035097 histone methyltransferase complex IPI 14992727
GO:0044666 MLL3/4 complex IDA 17500065
genes like me logo Genes that share ontologies with RBBP5: view

Pathways & Interactions for RBBP5 Gene

genes like me logo Genes that share pathways with RBBP5: view

Gene Ontology (GO) - Biological Process for RBBP5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006974 cellular response to DNA damage stimulus IDA 17500065
GO:0016569 covalent chromatin modification IEA --
GO:0043627 response to estrogen IDA 16603732
genes like me logo Genes that share ontologies with RBBP5: view

No data available for SIGNOR curated interactions for RBBP5 Gene

Transcripts for RBBP5 Gene

Unigene Clusters for RBBP5 Gene

Retinoblastoma binding protein 5:
Representative Sequences:

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RBBP5 Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b · 14c
SP1:
SP2: -
SP3: -
SP4: - - -
SP5:
SP6:
SP7:

Relevant External Links for RBBP5 Gene

GeneLoc Exon Structure for
RBBP5
ECgene alternative splicing isoforms for
RBBP5

Expression for RBBP5 Gene

mRNA expression in normal human tissues for RBBP5 Gene

Protein differential expression in normal tissues from HIPED for RBBP5 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (19.2), Cerebrospinal fluid (8.8), and Plasma (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RBBP5 Gene



Protein tissue co-expression partners for RBBP5 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RBBP5 Gene:

RBBP5

SOURCE GeneReport for Unigene cluster for RBBP5 Gene:

Hs.519230

mRNA Expression by UniProt/SwissProt for RBBP5 Gene:

Q15291-RBBP5_HUMAN
Tissue specificity: Ubiquitously expressed.
genes like me logo Genes that share expression patterns with RBBP5: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for RBBP5 Gene

Orthologs for RBBP5 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RBBP5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RBBP5 34 35
  • 99.01 (n)
oppossum
(Monodelphis domestica)
Mammalia RBBP5 35
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RBBP5 35
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RBBP5 34 35
  • 95.48 (n)
cow
(Bos Taurus)
Mammalia RBBP5 34 35
  • 95.35 (n)
rat
(Rattus norvegicus)
Mammalia Rbbp5 34
  • 92.94 (n)
mouse
(Mus musculus)
Mammalia Rbbp5 34 16 35
  • 92.63 (n)
chicken
(Gallus gallus)
Aves RBBP5 34 35
  • 83.52 (n)
lizard
(Anolis carolinensis)
Reptilia RBBP5 35
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rbbp5 34
  • 77.1 (n)
Str.20150 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.7100 34
zebrafish
(Danio rerio)
Actinopterygii rbbp5 34 35
  • 74.98 (n)
zgc56078 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6886 34
fruit fly
(Drosophila melanogaster)
Insecta CG6434 36 35
  • 71 (a)
CG5585 36
  • 66 (a)
Rbbp5 34 35
  • 60.59 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010575 34
  • 60.66 (n)
worm
(Caenorhabditis elegans)
Secernentea F21H12.1 36 34
  • 53.55 (n)
rbbp-5 35
  • 41 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SWD1 34 35 37
  • 46.23 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0A08800g 34
  • 45.81 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFL006C 34
  • 42.58 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G21060 34
  • 51.07 (n)
rice
(Oryza sativa)
Liliopsida Os03g0207900 34
  • 48.87 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5246 35
  • 69 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes swd1 34
  • 50.14 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU02104 34
  • 46.98 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2695 34
Species where no ortholog for RBBP5 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)
  • 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)
  • 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 RBBP5 Gene

ENSEMBL:
Gene Tree for RBBP5 (if available)
TreeFam:
Gene Tree for RBBP5 (if available)

Paralogs for RBBP5 Gene

No data available for Paralogs for RBBP5 Gene

Variants for RBBP5 Gene

Sequence variations from dbSNP and Humsavar for RBBP5 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10158848 -- 205,092,064(+) CAAGA(C/T)GACCA intron-variant
rs1048948 -- 205,088,596(-) CTTCC(C/T)TTTCA utr-variant-3-prime
rs10494859 -- 205,090,678(+) AATTC(A/G)GCTCA intron-variant
rs10562809 -- 205,101,895(+) TAGTC(-/T)TTTTT intron-variant
rs10626651 -- 205,085,744(+) ATTCA(-/AAA)AAAAA downstream-variant-500B, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RBBP5 Gene

Variant ID Type Subtype PubMed ID
dgv563n100 CNV gain 25217958
nsv468016 CNV loss 19166990
nsv549042 CNV loss 21841781
nsv819953 CNV loss 19587683

Variation tolerance for RBBP5 Gene

Residual Variation Intolerance Score: 14.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.29; 6.44% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RBBP5 Gene

Human Gene Mutation Database (HGMD)
RBBP5
SNPedia medical, phenotypic, and genealogical associations of SNPs for
RBBP5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RBBP5 Gene

Disorders for RBBP5 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RBBP5 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
retinoblastoma
  • retinoblastoma, trilateral
kabuki syndrome 1
  • kabuki syndrome
- elite association - COSMIC cancer census association via MalaCards
Search RBBP5 in MalaCards View complete list of genes associated with diseases

Relevant External Links for RBBP5

Genetic Association Database (GAD)
RBBP5
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RBBP5
genes like me logo Genes that share disorders with RBBP5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RBBP5 Gene

Publications for RBBP5 Gene

  1. Molecular cloning of a human protein that binds to the retinoblastoma protein and chromosomal mapping. (PMID: 7558034) Saijo M. … Taya Y. (Genomics 1995) 2 3 4 64
  2. Identification and characterization of a novel nuclear protein complex involved in nuclear hormone receptor-mediated gene regulation. (PMID: 19131338) Garapaty S. … Samuels H.H. (J. Biol. Chem. 2009) 3 4 64
  3. On the mechanism of multiple lysine methylation by the human mixed lineage leukemia protein-1 (MLL1) core complex. (PMID: 19556245) Patel A. … Cosgrove M.S. (J. Biol. Chem. 2009) 3 4 64
  4. Wdr82 is a C-terminal domain-binding protein that recruits the Setd1A Histone H3-Lys4 methyltransferase complex to transcription start sites of transcribed human genes. (PMID: 17998332) Lee J.H. … Skalnik D.G. (Mol. Cell. Biol. 2008) 3 4 64
  5. Molecular regulation of H3K4 trimethylation by Wdr82, a component of human Set1/COMPASS. (PMID: 18838538) Wu M. … Shilatifard A. (Mol. Cell. Biol. 2008) 3 4 64

Products for RBBP5 Gene

Sources for RBBP5 Gene

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