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Protein

Nucleolar transcription factor 1

Gene

Ubtf

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi112 – 18069HMG box 1PROSITE-ProRule annotationAdd
BLAST
DNA bindingi196 – 26469HMG box 2PROSITE-ProRule annotationAdd
BLAST
DNA bindingi298 – 36265HMG box 3PROSITE-ProRule annotationAdd
BLAST
DNA bindingi407 – 47569HMG box 4PROSITE-ProRule annotationAdd
BLAST
DNA bindingi482 – 54968HMG box 5PROSITE-ProRule annotationAdd
BLAST
DNA bindingi568 – 63467HMG box 6PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • chromatin silencing at rDNA Source: MGI
  • positive regulation of transcription from RNA polymerase I promoter Source: UniProtKB
  • transcription elongation from RNA polymerase I promoter Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Nucleolar transcription factor 1
Alternative name(s):
Upstream-binding factor 1
Short name:
UBF-1
Gene namesi
Name:Ubtf
Synonyms:Tcfubf, Ubf-1, Ubf1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:98512. Ubtf.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: UniProtKB
  • nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 765765Nucleolar transcription factor 1PRO_0000048626Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei201 – 2011PhosphothreonineCombined sources
Modified residuei273 – 2731Phosphoserine1 Publication
Modified residuei336 – 3361Phosphoserine1 Publication
Modified residuei364 – 3641Phosphoserine1 Publication
Modified residuei389 – 3891Phosphoserine1 Publication
Modified residuei412 – 4121Phosphoserine1 Publication
Modified residuei433 – 4331Phosphoserine1 Publication
Modified residuei484 – 4841PhosphoserineCombined sources1 Publication
Modified residuei495 – 4951PhosphoserineBy similarity
Modified residuei546 – 5461Phosphoserine1 Publication
Modified residuei584 – 5841Phosphoserine1 Publication
Modified residuei638 – 6381Phosphoserine1 Publication

Post-translational modificationi

Phosphorylated and activated by PIK3CA.1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP25976.
MaxQBiP25976.
PaxDbiP25976.
PRIDEiP25976.

PTM databases

iPTMnetiP25976.
PhosphoSiteiP25976.

Interactioni

Subunit structurei

Homodimer. Binds to IRS1 and PIK3CA. Interacts with TBP. Interacts with TAF1A and TAF1D. Interacts with PHF6 (By similarity). Interacts with RASL11A. Interacts with DHX33. Interacts with CEBPA (isoform 1 and isoform 4) (By similarity).By similarity3 Publications

Protein-protein interaction databases

DIPiDIP-29977N.
IntActiP25976. 7 interactions.
MINTiMINT-4084181.
STRINGi10090.ENSMUSP00000078539.

Structurei

Secondary structure

1
765
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni293 – 2953Combined sources
Helixi304 – 31512Combined sources
Helixi321 – 33414Combined sources
Helixi337 – 36428Combined sources
Helixi367 – 3748Combined sources
Turni375 – 3795Combined sources
Helixi413 – 4208Combined sources
Helixi422 – 4287Combined sources
Helixi434 – 44714Combined sources
Helixi450 – 46314Combined sources
Turni464 – 4674Combined sources
Beta strandi572 – 5743Combined sources
Helixi575 – 58511Combined sources
Turni587 – 5904Combined sources
Helixi593 – 60412Combined sources
Helixi609 – 63628Combined sources
Helixi641 – 65111Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1V63NMR-A567-654[»]
1V64NMR-A288-382[»]
1WGFNMR-A394-470[»]
ProteinModelPortaliP25976.
SMRiP25976. Positions 103-192, 288-383, 394-472, 481-546, 567-655.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP25976.

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi675 – 76591Asp/Glu/Ser-rich (acidic)Add
BLAST

Sequence similaritiesi

Contains 6 HMG box DNA-binding domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0381. Eukaryota.
COG5648. LUCA.
HOGENOMiHOG000232068.
HOVERGENiHBG008708.
InParanoidiP25976.
PhylomeDBiP25976.

Family and domain databases

Gene3Di1.10.30.10. 6 hits.
InterProiIPR029215. HMG_box_5.
IPR009071. HMG_box_dom.
[Graphical view]
PfamiPF00505. HMG_box. 3 hits.
PF09011. HMG_box_2. 1 hit.
PF14887. HMG_box_5. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 6 hits.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 6 hits.
PROSITEiPS50118. HMG_BOX_2. 6 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform UBF1 (identifier: P25976-1) [UniParc]FASTAAdd to basket

Also known as: Long

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MNGEADCPTD LEMAAPKGQD RWSQEDMLTL LECMKNNLPS NDSSKFKTTE
60 70 80 90 100
SHMDWEKVAF KDFSGDMCKL KWVEISNEVR KFRTLTELIL DAQEHVKNPY
110 120 130 140 150
KGKKLKKHPD FPKKPLTPYF RFFMEKRAKY AKLHPEMSNL DLTKILSKKY
160 170 180 190 200
KELPEKKKMK YIQDFQREKQ EFERNLARFR EDHPDLIQNA KKSDIPEKPK
210 220 230 240 250
TPQQLWYTHE KKVYLKVRPD ATTKEVKDSL GKQWSQLSDK KTLKWIHKAL
260 270 280 290 300
EQRKEYEEIM RDYIQKHPEL NISEEGITKS TLTKAERQLK DKFDGRPTKP
310 320 330 340 350
PPNSYSLYCA ELMANMKDVP STERMVLCSQ QWKLLSQKEK DAYHKKCDQK
360 370 380 390 400
KKDYEVELLR FLESLPEEEQ QRVLGEEKML NINKKQTTSP ASKKPSQEGG
410 420 430 440 450
KGGSEKPKRP VSAMFIFSEE KRRQLQEERP ELSESELTRL LARMWNDLTE
460 470 480 490 500
KKKAKYKARE AALKAQSERK PGGEREDRGK LPESPKRAEE IWQQSVIGDY
510 520 530 540 550
LARFKNDRVK ALKAMEMTWN NMEKKEKLMW IKKAAEDQKR YERELSEMRA
560 570 580 590 600
PPAATNSSKK MKFQGEPKKP PMNGYQKFSQ ELLSNGELNH LPLKERMVEI
610 620 630 640 650
GSRWQRISQS QKEHYKKLAE EQQRQYKVHL DLWVKSLSPQ DRAAYKEYIS
660 670 680 690 700
NKRKNMTKLR GPNPKSSRTT LQSKSESEED DDEEEEDDEE EEEEEEDDEN
710 720 730 740 750
GDSSEDGGDS SESSSEDESE DGDENDDDDD DEDDEDDDDE DEDNESEGSS
760
SSSSSSGDSS DSGSN
Length:765
Mass (Da):89,509
Last modified:May 1, 1992 - v1
Checksum:i006A20A7F968DB6A
GO
Isoform UBF2 (identifier: P25976-2) [UniParc]FASTAAdd to basket

Also known as: Short

The sequence of this isoform differs from the canonical sequence as follows:
     221-257: Missing.

Show »
Length:728
Mass (Da):85,095
Checksum:i17108E9528846CC4
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei221 – 25737Missing in isoform UBF2. 1 PublicationVSP_002194Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X60831 mRNA. Translation: CAA43222.1.
PIRiS22314.
UniGeneiMm.2845.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X60831 mRNA. Translation: CAA43222.1.
PIRiS22314.
UniGeneiMm.2845.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1V63NMR-A567-654[»]
1V64NMR-A288-382[»]
1WGFNMR-A394-470[»]
ProteinModelPortaliP25976.
SMRiP25976. Positions 103-192, 288-383, 394-472, 481-546, 567-655.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-29977N.
IntActiP25976. 7 interactions.
MINTiMINT-4084181.
STRINGi10090.ENSMUSP00000078539.

PTM databases

iPTMnetiP25976.
PhosphoSiteiP25976.

Proteomic databases

EPDiP25976.
MaxQBiP25976.
PaxDbiP25976.
PRIDEiP25976.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Organism-specific databases

MGIiMGI:98512. Ubtf.

Phylogenomic databases

eggNOGiKOG0381. Eukaryota.
COG5648. LUCA.
HOGENOMiHOG000232068.
HOVERGENiHBG008708.
InParanoidiP25976.
PhylomeDBiP25976.

Miscellaneous databases

EvolutionaryTraceiP25976.
PROiP25976.
SOURCEiSearch...

Family and domain databases

Gene3Di1.10.30.10. 6 hits.
InterProiIPR029215. HMG_box_5.
IPR009071. HMG_box_dom.
[Graphical view]
PfamiPF00505. HMG_box. 3 hits.
PF09011. HMG_box_2. 1 hit.
PF14887. HMG_box_5. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 6 hits.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 6 hits.
PROSITEiPS50118. HMG_BOX_2. 6 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning and structural analysis of cDNA and the gene for mouse transcription factor UBF."
    Hisatake K., Nishimura T., Maeda Y., Hanada K., Song C.Z., Muramatsu M.
    Nucleic Acids Res. 19:4631-4637(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS UBF1 AND UBF2).
    Strain: C3H/He.
  2. "Control of cell size through phosphorylation of upstream binding factor 1 by nuclear phosphatidylinositol 3-kinase."
    Drakas R., Tu X., Baserga R.
    Proc. Natl. Acad. Sci. U.S.A. 101:9272-9276(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH IRS1 AND PIK3CA.
  3. "Mass spectrometric identification of phosphorylation sites of rRNA transcription factor upstream binding factor."
    Lin C.H., Platt M.D., Ficarro S.B., Hoofnagle M.H., Shabanowitz J., Comai L., Hunt D.F., Owens G.K.
    Am. J. Physiol. 292:C1617-C1624(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION AT SER-273; SER-336; SER-364; SER-389; SER-412; SER-433; SER-484; SER-546; SER-584 AND SER-638.
  4. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-201 AND SER-484, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Lung and Spleen.
  5. "Chromatin association and regulation of rDNA transcription by the Ras-family protein RasL11a."
    Pistoni M., Verrecchia A., Doni M., Guccione E., Amati B.
    EMBO J. 29:1215-1224(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH RASL11A.
  6. "Identification of DHX33 as a mediator of rRNA synthesis and cell growth."
    Zhang Y., Forys J.T., Miceli A.P., Gwinn A.S., Weber J.D.
    Mol. Cell. Biol. 31:4676-4691(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH DHX33.
  7. "Solution structure of the 3rd, 4th and 6th HMG-box of mouse UBF1."
    RIKEN structural genomics initiative (RSGI)
    Submitted (NOV-2004) to the PDB data bank
    Cited for: STRUCTURE BY NMR OF 288-654.

Entry informationi

Entry nameiUBF1_MOUSE
AccessioniPrimary (citable) accession number: P25976
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: March 16, 2016
This is version 140 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.