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Protein

Nucleolar transcription factor 1

Gene

Ubtf

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 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 (By similarity).By similarity

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

Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-RNO-73728. RNA Polymerase I Promoter Opening.
R-RNO-73762. RNA Polymerase I Transcription Initiation.
R-RNO-73772. RNA Polymerase I Promoter Escape.
R-RNO-73777. RNA Polymerase I Chain Elongation.
R-RNO-73863. RNA Polymerase I Transcription Termination.

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
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 10

Organism-specific databases

RGDi3927. Ubtf.

Subcellular locationi

GO - Cellular componenti

  • fibrillar center Source: RGD
  • nucleolus Source: UniProtKB
  • nucleus Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 764764Nucleolar transcription factor 1PRO_0000048627Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei201 – 2011PhosphothreonineBy similarity
Modified residuei273 – 2731PhosphoserineBy similarity
Modified residuei336 – 3361PhosphoserineBy similarity
Modified residuei364 – 3641PhosphoserineBy similarity
Modified residuei389 – 3891PhosphoserineBy similarity
Modified residuei412 – 4121PhosphoserineBy similarity
Modified residuei433 – 4331PhosphoserineBy similarity
Modified residuei435 – 4351PhosphoserineBy similarity
Modified residuei484 – 4841PhosphoserineBy similarity
Modified residuei495 – 4951PhosphoserineBy similarity
Modified residuei546 – 5461PhosphoserineBy similarity
Modified residuei584 – 5841PhosphoserineBy similarity
Modified residuei638 – 6381PhosphoserineBy similarity

Post-translational modificationi

Phosphorylated and activated by PIK3CA.By similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiP25977.
PRIDEiP25977.

PTM databases

iPTMnetiP25977.
PhosphoSiteiP25977.

Expressioni

Gene expression databases

BgeeiENSRNOG00000020937.
GenevisibleiP25977. RN.

Interactioni

Subunit structurei

Homodimer. Binds to IRS1 and PIK3CA. Interacts with TBP. Interacts with RASL11A, TAF1A and TAF1D. Interacts with DHX33. Interacts with PHF6 (By similarity). Interacts with CEBPA (isoform 1 and isoform 4) (PubMed:20075868).By similarity1 Publication

Protein-protein interaction databases

DIPiDIP-60265N.
STRINGi10116.ENSRNOP00000063740.

Structurei

3D structure databases

ProteinModelPortaliP25977.
SMRiP25977. Positions 103-192, 288-383, 394-472, 481-546, 567-655.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi675 – 76490Asp/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.
GeneTreeiENSGT00530000063934.
HOGENOMiHOG000232068.
HOVERGENiHBG008708.
InParanoidiP25977.
KOiK09273.
OMAiCSQRWKL.
OrthoDBiEOG091G0GL0.
PhylomeDBiP25977.
TreeFamiTF328989.

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: P25977-1) [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 KRLKWIHKAL
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 LARMWNDLSE
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 DDEEDDDDDD EEEEEDDENG
710 720 730 740 750
DSSEDGGDSS ESSSEDESED GDENEDDDDD EDDDEDDDED EDNESEGSSS
760
SSSSSGDSSD SDSN
Length:764
Mass (Da):89,437
Last modified:May 1, 1992 - v1
Checksum:iE9D3371615DB0534
GO
Isoform UBF2 (identifier: P25977-2) [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:727
Mass (Da):84,968
Checksum:iA37D049F18B2AB2D
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei221 – 25737Missing in isoform UBF2. CuratedVSP_002195Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M61726 mRNA. No translation available.
M61725 mRNA. No translation available.
PIRiA40439.
B40439.
RefSeqiNP_001099193.2. NM_001105723.3. [P25977-2]
NP_001121162.1. NM_001127690.2. [P25977-1]
XP_006247324.1. XM_006247262.2. [P25977-1]
XP_006247325.1. XM_006247263.2. [P25977-1]
XP_006247326.1. XM_006247264.2. [P25977-1]
XP_008766173.1. XM_008767951.1. [P25977-2]
XP_008766174.1. XM_008767952.1. [P25977-2]
UniGeneiRn.22469.

Genome annotation databases

EnsembliENSRNOT00000048418; ENSRNOP00000044305; ENSRNOG00000020937. [P25977-2]
ENSRNOT00000064283; ENSRNOP00000063740; ENSRNOG00000020937. [P25977-1]
GeneIDi25574.
KEGGirno:25574.
UCSCiRGD:3927. rat. [P25977-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M61726 mRNA. No translation available.
M61725 mRNA. No translation available.
PIRiA40439.
B40439.
RefSeqiNP_001099193.2. NM_001105723.3. [P25977-2]
NP_001121162.1. NM_001127690.2. [P25977-1]
XP_006247324.1. XM_006247262.2. [P25977-1]
XP_006247325.1. XM_006247263.2. [P25977-1]
XP_006247326.1. XM_006247264.2. [P25977-1]
XP_008766173.1. XM_008767951.1. [P25977-2]
XP_008766174.1. XM_008767952.1. [P25977-2]
UniGeneiRn.22469.

3D structure databases

ProteinModelPortaliP25977.
SMRiP25977. Positions 103-192, 288-383, 394-472, 481-546, 567-655.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-60265N.
STRINGi10116.ENSRNOP00000063740.

PTM databases

iPTMnetiP25977.
PhosphoSiteiP25977.

Proteomic databases

PaxDbiP25977.
PRIDEiP25977.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000048418; ENSRNOP00000044305; ENSRNOG00000020937. [P25977-2]
ENSRNOT00000064283; ENSRNOP00000063740; ENSRNOG00000020937. [P25977-1]
GeneIDi25574.
KEGGirno:25574.
UCSCiRGD:3927. rat. [P25977-1]

Organism-specific databases

CTDi7343.
RGDi3927. Ubtf.

Phylogenomic databases

eggNOGiKOG0381. Eukaryota.
COG5648. LUCA.
GeneTreeiENSGT00530000063934.
HOGENOMiHOG000232068.
HOVERGENiHBG008708.
InParanoidiP25977.
KOiK09273.
OMAiCSQRWKL.
OrthoDBiEOG091G0GL0.
PhylomeDBiP25977.
TreeFamiTF328989.

Enzyme and pathway databases

ReactomeiR-RNO-73728. RNA Polymerase I Promoter Opening.
R-RNO-73762. RNA Polymerase I Transcription Initiation.
R-RNO-73772. RNA Polymerase I Promoter Escape.
R-RNO-73777. RNA Polymerase I Chain Elongation.
R-RNO-73863. RNA Polymerase I Transcription Termination.

Miscellaneous databases

PROiP25977.

Gene expression databases

BgeeiENSRNOG00000020937.
GenevisibleiP25977. RN.

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...

Entry informationi

Entry nameiUBF1_RAT
AccessioniPrimary (citable) accession number: P25977
Secondary accession number(s): P25978
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: September 7, 2016
This is version 134 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

Complete proteome, Reference proteome

Documents

  1. 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.