Human Gene UBTF (ENST00000302904.8) from GENCODE V44
Description: Homo sapiens upstream binding transcription factor (UBTF), transcript variant 4, non-coding RNA. (from RefSeq NR_045058) RefSeq Summary (NR_045058): This gene encodes a member of the HMG-box DNA-binding protein family. The encoded protein plays a critical role in ribosomal RNA transcription as a key component of the pre-initiation complex, mediating the recruitment of RNA polymerase I to rDNA promoter regions. The encoded protein may also play important roles in chromatin remodeling and pre-rRNA processing, and its activity is regulated by both phosphorylation and acetylation. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. Pseudogenes of this gene are located on the short arm of chromosomes 3, 11 and X and the long arm of chromosome 11. [provided by RefSeq, Aug 2011]. Gencode Transcript: ENST00000302904.8 Gencode Gene: ENSG00000108312.16 Transcript (Including UTRs) Position: hg38 chr17:44,205,033-44,221,626 Size: 16,594 Total Exon Count: 21 Strand: - Coding Region Position: hg38 chr17:44,207,242-44,218,229 Size: 10,988 Coding Exon Count: 20
ID:UBF1_HUMAN DESCRIPTION: RecName: Full=Nucleolar transcription factor 1; AltName: Full=Autoantigen NOR-90; AltName: Full=Upstream-binding factor 1; Short=UBF-1; FUNCTION: Recognizes the ribosomal RNA gene promoter and activates transcription mediated by RNA polymerase I through cooperative interactions with the transcription factor SL1/TIF-IB complex. It binds specifically to the upstream control element. SUBUNIT: Homodimer. Interacts with TBP. Interacts with RASL11A, TAF1A and TAF1D. Binds to IRS1 and PIK3CA (By similarity). Interacts with DHX33. INTERACTION: P01106:MYC; NbExp=2; IntAct=EBI-396235, EBI-447544; SUBCELLULAR LOCATION: Nucleus, nucleolus (By similarity). PTM: Phosphorylated and activated by PIK3CA (By similarity). SIMILARITY: Contains 6 HMG box DNA-binding domains.
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
ModBase Predicted Comparative 3D Structure on P17480
Front
Top
Side
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.
Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
Gene Ontology (GO) Annotations with Structured Vocabulary
Molecular Function: GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding GO:0001164 RNA polymerase I CORE element sequence-specific DNA binding GO:0001165 RNA polymerase I upstream control element sequence-specific DNA binding GO:0003677 DNA binding GO:0003682 chromatin binding GO:0003723 RNA binding GO:0005515 protein binding GO:0097110 scaffold protein binding
Biological Process: GO:0001188 RNA polymerase I transcriptional preinitiation complex assembly GO:0006351 transcription, DNA-templated GO:0006355 regulation of transcription, DNA-templated GO:0006356 regulation of transcription from RNA polymerase I promoter GO:0006357 regulation of transcription from RNA polymerase II promoter GO:0006360 transcription from RNA polymerase I promoter GO:0006361 transcription initiation from RNA polymerase I promoter GO:0006363 termination of RNA polymerase I transcription GO:0045943 positive regulation of transcription from RNA polymerase I promoter GO:1902659 regulation of glucose mediated signaling pathway
BC042297 - Homo sapiens upstream binding transcription factor, RNA polymerase I, mRNA (cDNA clone MGC:48801 IMAGE:4509695), complete cds. AF289595 - Homo sapiens clone pp7879 unknown mRNA. X53390 - Human mRNA for upstream binding factor (hUBF). X53461 - Human mRNA for upstream binding factor (hUBF). JD338783 - Sequence 319807 from Patent EP1572962. JD270760 - Sequence 251784 from Patent EP1572962. JD372548 - Sequence 353572 from Patent EP1572962. JD362403 - Sequence 343427 from Patent EP1572962. JD362402 - Sequence 343426 from Patent EP1572962. JD381236 - Sequence 362260 from Patent EP1572962. JD423214 - Sequence 404238 from Patent EP1572962. AK291733 - Homo sapiens cDNA FLJ75058 complete cds, highly similar to Homo sapiens upstream binding transcription factor, RNA polymerase I (UBTF), mRNA. JD105043 - Sequence 86067 from Patent EP1572962. JD205745 - Sequence 186769 from Patent EP1572962. JD388590 - Sequence 369614 from Patent EP1572962. AK296917 - Homo sapiens cDNA FLJ53802 complete cds, highly similar to Nucleolar transcription factor 1. X56688 - H.sapiens mRNA autoantigen NOR-90 3'-untranslated region. AK298008 - Homo sapiens cDNA FLJ53818 complete cds, highly similar to Nucleolar transcription factor 1. X56687 - H.sapiens mRNA for autoantigen NOR-90. AK292577 - Homo sapiens cDNA FLJ77827 complete cds, highly similar to Human mRNA for upstream binding factor (hUBF). JD389592 - Sequence 370616 from Patent EP1572962. AK292518 - Homo sapiens cDNA FLJ77758 complete cds, highly similar to Homo sapiens upstream binding transcription factor, RNA polymerase I (UBTF), mRNA. JD100164 - Sequence 81188 from Patent EP1572962. JD380374 - Sequence 361398 from Patent EP1572962. AK308321 - Homo sapiens cDNA, FLJ98269. BC031423 - Homo sapiens upstream binding transcription factor, RNA polymerase I, mRNA (cDNA clone IMAGE:4341587), partial cds. M61724 - Human UBF2 transcription factor mRNA. JD172691 - Sequence 153715 from Patent EP1572962. JD137749 - Sequence 118773 from Patent EP1572962. JD382990 - Sequence 364014 from Patent EP1572962. JD343975 - Sequence 324999 from Patent EP1572962.
Biochemical and Signaling Pathways
Reactome (by CSHL, EBI, and GO)
Protein P17480 (Reactome details) participates in the following event(s):
R-HSA-73718 UBF-1 Binds rDNA Promoter R-HSA-73722 Phosphorylation of UBF-1:rDNA Promoter R-HSA-74994 Polymerase I Transcription Complex/Nascent Pre rRNA Complex pauses at the TTF-I:Sal Box R-HSA-73769 Loss of Rrn3 from RNA Polymerase I promoter escape complex R-HSA-74992 Dissociation of PTRF:Polymerase I/Nascent Pre rRNA Complex:TTF-I:Sal Box R-HSA-73739 Recruitment of Acetylated SL1 to phosUBF-1:rDNA Promoter R-HSA-74993 PTRF Binds the Polymerase I Transcription Complex/Nascent Pre rRNA Complex paused at the TTF-I:Sal Box R-HSA-74986 Elongation of pre-rRNA transcript R-HSA-427366 Transcription of intergenic spacer of the rRNA gene R-HSA-73758 Recruitment of Active RNA Polymerase I to SL1:phos.UBF-1:rDNA Promoter R-HSA-73728 RNA Polymerase I Promoter Opening R-HSA-73863 RNA Polymerase I Transcription Termination R-HSA-73772 RNA Polymerase I Promoter Escape R-HSA-73854 RNA Polymerase I Promoter Clearance R-HSA-73762 RNA Polymerase I Transcription Initiation R-HSA-73864 RNA Polymerase I Transcription R-HSA-73777 RNA Polymerase I Chain Elongation R-HSA-427413 NoRC negatively regulates rRNA expression R-HSA-74160 Gene expression (Transcription) R-HSA-5250941 Negative epigenetic regulation of rRNA expression R-HSA-212165 Epigenetic regulation of gene expression
US Server
