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    TBP TATA-box binding protein [ Homo sapiens (human) ]

    Gene ID: 6908, updated on 14-Dec-2023

    Summary

    Official Symbol
    TBPprovided by HGNC
    Official Full Name
    TATA-box binding proteinprovided by HGNC
    Primary source
    HGNC:HGNC:11588
    See related
    Ensembl:ENSG00000112592 MIM:600075; AllianceGenome:HGNC:11588
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    HDL4; TBP1; GTF2D; SCA17; TFIID; GTF2D1
    Summary
    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 25-42, and expansion of the number of repeats to 45-66 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, Jul 2016]
    Expression
    Broad expression in testis (RPKM 21.7), lymph node (RPKM 7.6) and 24 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See TBP in Genome Data Viewer
    Location:
    6q27
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (170554369..170572859)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (171927920..171946405)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (170863457..170881947)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378157 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:170806710-170807540 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:170816979-170818178 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25467 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25468 Neighboring gene proteasome 20S subunit beta 1 Neighboring gene TATA-box binding protein repeat instability region Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17802 Neighboring gene programmed cell death 2 Neighboring gene uncharacterized LOC101929692 Neighboring gene olfactory receptor family 4 subfamily F member 7 pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env The transcription factors and kinases c-Jun, JNK, MEK, p38 MAPK, STAT-3, JAK-1, TFII D, TFII F, eIF-4E, and RNA polymerase II are induced by HIV-1 gp120 PubMed
    Tat tat Recruitment of TBP to the HIV-1 LTR promoter is a limiting step for HIV-1 Tat transactivation, however interaction of Tat with TBP/TFIID occurs after this recruitment PubMed
    tat TBP is required for HIV-1 Tat-mediated transactivation of the HIV-1 LTR promoter PubMed
    tat TBP interacts with HIV-1 Tat as part of the HIV-1 transcription preinitiation complex (PIC) and is necessary for Tat association with the PIC PubMed
    tat Inhibition of HIV-1 Tat by p53 is mediated through the Sp1 and TATA box of the HIV-1 LTR, suggesting p53 interferes with the interaction between Tat and TBP during LTR transactivation PubMed
    tat Interaction of TBP/TFIID with the HIV-1 LTR, and therefore presumably HIV-1 Tat, is primarily dependent on the LTR TATA element and may also be stabilized or regulated by flanking E box motifs and basic helix-loop-helix proteins such as AP-4 and E47 PubMed
    tat HIV-1 Tat competes for Dr1 interaction with TBP PubMed
    tat Binding of HIV-1 Tat to the TBP subunit of TFIID stabilizes the interaction of TFIID with TFIIA PubMed
    tat HIV-1 Tat interacts with the RNA polymerase II holoenzyme complex that supports Tat-mediated transactivation of the HIV-1 LTR in vitro upon addition of TBP and TFIIB PubMed
    tat TBP synergizes with HIV-1 Tat during Tat-mediated transactivation of the HIV-1 LTR promoter PubMed
    tat Binding of HIV-1 Tat to TBP has been mapped to the cysteine rich and core domains (amino acids 20-50) of Tat and the H1 alpha helical and S2 domains (amino acids 163-220) of TBP PubMed
    tat HIV-1 Tat directly interacts with TBP as demonstrated by Tat-affinity column purification PubMed
    tat HIV-1 Tat binds directly to the basal transcription factor TFIID through the TBP subunit of TFIID PubMed
    tat Binding of HIV-1 Tat to p300 induces a conformational change in the CBP/p300 complex such that it can acquire and bind better to basal transcription factors such as TBP, indicating Tat helps CBP/p300 recruit new partners to the transcription machinery PubMed
    Vpr vpr HIV-1 Vpr (amino acids 1-35) binds to TFIID, an interaction that is associated with the ability of Vpr to stimulate transcription through the glucocorticoid receptor pathway PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC117320, MGC126054, MGC126055

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    part_of RNA polymerase transcription factor SL1 complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of chromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    part_of euchromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in female germ cell nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in female pronucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in male germ cell nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in male pronucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus EXP
    Inferred from Experiment
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of protein-containing complex IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    part_of transcription factor TFIIA complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of transcription factor TFIID complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of transcription factor TFIID complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of transcription factor TFIID complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    TATA-box-binding protein
    Names
    TATA sequence-binding protein
    TATA-box binding protein N-terminal domain
    TATA-box factor
    transcription initiation factor TFIID TBP subunit

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_008165.1 RefSeqGene

      Range
      4987..23477
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001172085.2NP_001165556.1  TATA-box-binding protein isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AK304648, AL031259, CA422572
      Consensus CDS
      CCDS55077.1
      UniProtKB/TrEMBL
      Q32MN7
      Related
      ENSP00000442132.1, ENST00000540980.5
      Conserved Domains (2) summary
      PLN00062
      Location:142318
      PLN00062; TATA-box-binding protein; Provisional
      cd04516
      Location:142315
      TBP_eukaryotes; eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation ...
    2. NM_003194.5NP_003185.1  TATA-box-binding protein isoform 1

      See identical proteins and their annotated locations for NP_003185.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL031259, BC109053, BM720195, CA422572
      Consensus CDS
      CCDS5315.1
      UniProtKB/Swiss-Prot
      B4E3B3, F5H869, P20226, Q16845, Q6IBM6, Q9UC02
      UniProtKB/TrEMBL
      Q32MN7
      Related
      ENSP00000375942.2, ENST00000392092.7
      Conserved Domains (1) summary
      PLN00062
      Location:162338
      PLN00062; TATA-box-binding protein; Provisional

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      170554369..170572859
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      171927920..171946405
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)