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Aliases for TBP Gene

Aliases for TBP Gene

  • TATA Box Binding Protein 2 3
  • Transcription Initiation Factor TFIID TBP Subunit 3 4
  • TATA Sequence-Binding Protein 3 4
  • TATA-Box Factor 3 4
  • GTF2D1 3 4
  • SCA17 3 6
  • TFIID 3 4
  • HDL4 3 6
  • TATA-Box Binding Protein N-Terminal Domain 3
  • TATA-Box-Binding Protein 3
  • TATA-Binding Factor 4
  • GTF2D 3
  • TF2D 4

External Ids for TBP Gene

Previous Symbols for TBP Gene

  • GTF2D1
  • SCA17

Summaries for TBP Gene

Entrez Gene Summary for TBP Gene

  • Initiation of transcription by RNA polymerase II requires the activities of more than 70 polypeptides. The protein that coordinates these activities is transcription factor IID (TFIID), which binds to the core promoter to position the polymerase properly, serves as the scaffold for assembly of the remainder of the transcription complex, and acts as a channel for regulatory signals. TFIID is composed of the TATA-binding protein (TBP) and a group of evolutionarily conserved proteins known as TBP-associated factors or TAFs. TAFs may participate in basal transcription, serve as coactivators, function in promoter recognition or modify general transcription factors (GTFs) to facilitate complex assembly and transcription initiation. This gene encodes TBP, the TATA-binding protein. A distinctive feature of TBP is a long string of glutamines in the N-terminus. This region of the protein modulates the DNA binding activity of the C terminus, and modulation of DNA binding affects the rate of transcription complex formation and initiation of transcription. The number of CAG repeats encoding the polyglutamine tract is usually 32-39, and expansion of the number of repeats increases the length of the polyglutamine string and is associated with spinocerebellar ataxia 17, a neurodegenerative disorder classified as a polyglutamine disease. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2010]

GeneCards Summary for TBP Gene

TBP (TATA Box Binding Protein) is a Protein Coding gene. Diseases associated with TBP include spinocerebellar ataxia 17 and spinocerebellar ataxia type17. Among its related pathways are Disease and GPCR Pathway. GO annotations related to this gene include transcription factor binding and repressing transcription factor binding. An important paralog of this gene is TBPL1.

UniProtKB/Swiss-Prot for TBP Gene

  • General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1 with the rDNA promoter. SL1 is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA.

Gene Wiki entry for TBP Gene

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

Genomics for TBP Gene

Genomic Location for TBP Gene

Start:
170,554,302 bp from pter
End:
170,572,870 bp from pter
Size:
18,569 bases
Orientation:
Plus strand

Genomic View for TBP Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for TBP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TBP Gene

Regulatory Elements for TBP Gene

Proteins for TBP Gene

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

    Protein Symbol:
    P20226-TBP_HUMAN
    Recommended name:
    TATA-box-binding protein
    Protein Accession:
    P20226
    Secondary Accessions:
    • B4E3B3
    • F5H869
    • Q16845
    • Q6IBM6
    • Q9UC02

    Protein attributes for TBP Gene

    Size:
    339 amino acids
    Molecular mass:
    37698 Da
    Quaternary structure:
    • Binds DNA as monomer. Belongs to the TFIID complex together with the TBP-associated factors (TAFs). Component of the transcription factor SL1/TIF-IB complex, composed of TBP and at least TAF1A, TAF1B TAF1C and TAF1D. Association of TBP to form either TFIID or SL1/TIF-IB appears to be mutually exclusive. Interacts with TAF1A, TAF1B and TAF1C. Interacts with TFIIB, NCOA6, DRAP1, DR1 and ELF3. Interacts with SPIB, SNAPC1, SNAPC2 and SNAPC4. Interacts with UTF1. Interacts with BRF2. Interacts with UBTF. Interacts with GPBP1. Interacts with CITED2 (By similarity). Interacts with ATF7IP. Interacts with HIV-1 Tat. Interacts with herpes simplex virus 1 ICP4.

    Three dimensional structures from OCA and Proteopedia for TBP Gene

    Alternative splice isoforms for TBP Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TBP Gene

Proteomics data for TBP Gene at MOPED

Post-translational modifications for TBP Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys181, Lys243, and Lys249

Other Protein References for TBP Gene

No data available for DME Specific Peptides for TBP Gene

Domains for TBP Gene

Gene Families for TBP Gene

HGNC:
  • GTF :General transcription factors

Protein Domains for TBP Gene

UniProtKB/Swiss-Prot:

TBP_HUMAN
Family:
  • Belongs to the TBP family.:
    • P20226
genes like me logo Genes that share domains with TBP: view

Function for TBP Gene

Molecular function for TBP Gene

GENATLAS Biochemistry: TATA-box binding protein.component of the multisubunit complex TFIID,with a stretch of polyglutamine,ubiquitously expressed. Interacting with MYC
UniProtKB/Swiss-Prot Function: General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription. The rate of PIC formation probably is primarily dependent on the rate of association of SL1 with the rDNA promoter. SL1 is involved in stabilization of nucleolar transcription factor 1/UBTF on rDNA.

Gene Ontology (GO) - Molecular Function for TBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001103 RNA polymerase II repressing transcription factor binding IEA --
GO:0003677 DNA binding --
GO:0003700 sequence-specific DNA binding transcription factor activity IEA --
GO:0005515 protein binding IPI 10391676
GO:0008134 transcription factor binding IPI 11005381
genes like me logo Genes that share ontologies with TBP: view
genes like me logo Genes that share phenotypes with TBP: view

Animal Models for TBP Gene

MGI Knock Outs for TBP:

miRNA for TBP Gene

miRTarBase miRNAs that target TBP

Transcription Factor Targeting for TBP Gene

Selected GeneGlobe predicted Target genes for TBP
Targeting motifs for TBP Gene
HOMER Transcription Factor Regulatory Elements motif TBP
  • Consensus sequence: CCTTTTATAGCC Submotif: canonical Cell Type: NA

No data available for Enzyme Numbers (IUBMB) for TBP Gene

Localization for TBP Gene

Subcellular locations from UniProtKB/Swiss-Prot for TBP Gene

Nucleus.

Subcellular locations from

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

Gene Ontology (GO) - Cellular Components for TBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001939 female pronucleus IEA --
GO:0001940 male pronucleus IEA --
GO:0005634 nucleus --
GO:0005654 nucleoplasm TAS --
GO:0005669 transcription factor TFIID complex IDA 14580349
genes like me logo Genes that share ontologies with TBP: view

Pathways for TBP Gene

SuperPathways for TBP Gene

Superpath Contained pathways
1 Formation of RNA Pol II elongation complex
2 RNA Polymerase III Transcription Initiation
3 Assembly of RNA Polymerase-II Initiation Complex
4 RNA Polymerase I Promoter Opening
5 RNA Polymerase I Promoter Escape
genes like me logo Genes that share pathways with TBP: view

Gene Ontology (GO) - Biological Process for TBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000183 chromatin silencing at rDNA TAS --
GO:0006352 DNA-templated transcription, initiation --
GO:0006360 transcription from RNA polymerase I promoter TAS --
GO:0006361 transcription initiation from RNA polymerase I promoter TAS --
GO:0006362 transcription elongation from RNA polymerase I promoter TAS --
genes like me logo Genes that share ontologies with TBP: view

Compounds for TBP Gene

(51) Novoseek inferred chemical compound relationships for TBP Gene

Compound -log(P) Hits PubMed IDs
s-napc 85.3 12
tbps 83.7 13
actb 79.7 15
pluramycin 62.1 5
phosphocellulose 53.6 3
genes like me logo Genes that share compounds with TBP: view

Transcripts for TBP Gene

Unigene Clusters for TBP Gene

TATA box binding protein:
Representative Sequences:

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

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

Relevant External Links for TBP Gene

GeneLoc Exon Structure for
TBP
ECgene alternative splicing isoforms for
TBP

Expression for TBP Gene

mRNA expression in normal human tissues for TBP Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for TBP Gene

SOURCE GeneReport for Unigene cluster for TBP Gene Hs.590872

mRNA Expression by UniProt/SwissProt for TBP Gene

P20226-TBP_HUMAN
Tissue specificity: Widely expressed, with levels highest in the testis and ovary.
genes like me logo Genes that share expressions with TBP: view

Orthologs for TBP Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TBP Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TBP 36
  • 95.14 (n)
  • 95.54 (a)
TBP 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TBP 36
  • 90.6 (n)
  • 95.92 (a)
TBP 37
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TBP 36
  • 88.68 (n)
  • 95.06 (a)
TBP 37
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tbp 36
  • 86.5 (n)
  • 94.94 (a)
Tbp 16
Tbp 37
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TBP 37
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TBP 37
  • 86 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tbp 36
  • 86.06 (n)
  • 94.65 (a)
chicken
(Gallus gallus)
Aves TBP 36
  • 83 (n)
  • 96.36 (a)
TBP 37
  • 98 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TBP 37
  • 95 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.6667 36
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6374 36
tbp 36
  • 79.14 (n)
  • 96.04 (a)
zebrafish
(Danio rerio)
Actinopterygii sizc101n13.2 36
tbp 36
  • 79.74 (n)
  • 93.83 (a)
tbp 37
  • 89 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Tbp 37
  • 54 (a)
OneToMany
Tbp 38
  • 87 (a)
Trf 38
  • 62 (a)
worm
(Caenorhabditis elegans)
Secernentea tbp-1 37
  • 52 (a)
OneToMany
tbp-1 38
  • 80 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGR134W 36
  • 66.11 (n)
  • 80.56 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SPT15 36
  • 67.9 (n)
  • 79.37 (a)
SPT15 37
  • 63 (a)
OneToMany
SPT15 39
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E10099g 36
  • 68.28 (n)
  • 78.49 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.2191 36
soybean
(Glycine max)
eudicotyledons Gma.4412 36
barley
(Hordeum vulgare)
Liliopsida Hv.10645 36
corn
(Zea mays)
Liliopsida Zm.93 36
rice
(Oryza sativa)
Liliopsida Os.18508 36
Os10g0432300 36
  • 66.84 (n)
  • 79.26 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.15 36
bread mold
(Neurospora crassa)
Ascomycetes NCU04770 36
  • 64.1 (n)
  • 78.46 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes tbp1 36
  • 60.45 (n)
  • 70 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14174 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10479 37
  • 58 (a)
OneToMany
Species with no ortholog for TBP:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for TBP Gene

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

Paralogs for TBP Gene

Paralogs for TBP Gene

Selected SIMAP similar genes for TBP Gene using alignment to 8 proteins:

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

Variants for TBP Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for TBP Gene

P20226-TBP_HUMAN
The poly-Gln region of TBP is highly polymorphic (25 to 42 repeats) in normal individuals and is expanded to about 47-63 repeats in spinocerebellar ataxia 17 (SCA17) patients

Sequence variations from dbSNP and Humsavar for TBP Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs1042327 Likely benign 170,569,705(+) CAGAA(C/T)ATGGT synonymous-codon, reference
rs2072916 -- 170,572,042(-) TTAAT(A/G)GTGGA intron-variant
rs2076318 -- 170,569,337(-) CATCA(A/G)TCATC intron-variant
rs2235506 -- 170,569,798(-) AATCA(C/T)AATAC intron-variant
rs3800235 -- 170,567,965(-) CATTT(A/C)ATACT intron-variant

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

Variant ID Type Subtype PubMed ID
esv344 CNV CNV 17122850
nsv428158 CNV Gain 18775914
dgv2041e1 CNV Complex 17122850
nsv830874 CNV Loss 17160897

Relevant External Links for TBP Gene

HapMap Linkage Disequilibrium report
TBP
Human Gene Mutation Database (HGMD)
TBP

Disorders for TBP Gene

(2) OMIM Diseases for TBP Gene (600075)

UniProtKB/Swiss-Prot

TBP_HUMAN
  • Spinocerebellar ataxia 17 (SCA17) [MIM:607136]: Spinocerebellar ataxia is a clinically and genetically heterogeneous group of cerebellar disorders. Patients show progressive incoordination of gait and often poor coordination of hands, speech and eye movements, due to degeneration of the cerebellum with variable involvement of the brainstem and spinal cord. SCA17 is an autosomal dominant cerebellar ataxia (ADCA) characterized by widespread cerebral and cerebellar atrophy, dementia and extrapyramidal signs. The molecular defect in SCA17 is the expansion of a CAG repeat in the coding region of TBP. Longer expansions result in earlier onset and more severe clinical manifestations of the disease. {ECO:0000269 PubMed:11313753, ECO:0000269 PubMed:11448935, ECO:0000269 PubMed:11939898}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(33) Novoseek inferred disease relationships for TBP Gene

Disease -log(P) Hits PubMed IDs
sca17 93.6 52
spinocerebellar ataxias 79.9 16
drpla 68.2 9
sca12 59 6
huntington disease 40.3 3

Relevant External Links for TBP

GeneTests
TBP
GeneReviews
TBP
Genetic Association Database (GAD)
TBP
Human Genome Epidemiology (HuGE) Navigator
TBP
genes like me logo Genes that share disorders with TBP: view

Publications for TBP Gene

  1. SCA17, a novel autosomal dominant cerebellar ataxia caused by an expanded polyglutamine in TATA-binding protein. (PMID: 11448935) Nakamura K. … Kanazawa I. (Hum. Mol. Genet. 2001) 2 3 4 23
  2. Huntington's disease-like phenotype due to trinucleotide repeat expansions in the TBP and JPH3 genes. (PMID: 12805114) Stevanin G. … Durr A. (Brain 2003) 3 23 49
  3. Trinucleotide repeats in 202 families with ataxia: a small expanded (CAG)n allele at the SCA17 locus. (PMID: 11939898) Silveira I. … Sequeiros J. (Arch. Neurol. 2002) 3 4 23
  4. The small nuclear RNA-activating protein 190 Myb DNA binding domain stimulates TATA box-binding protein-TATA box recognition. (PMID: 12621023) Hinkley C.S. … Henry R.W. (J. Biol. Chem. 2003) 3 4 23
  5. Analysis of polyglutamine-coding repeats in the TATA-binding protein in different neurodegenerative diseases. (PMID: 15365789) Wu Y.R. … Chen C.M. (J Neural Transm 2005) 3 23 49

Products for TBP Gene

  • Addgene plasmids for TBP

Sources for TBP Gene

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