Tbio UBTF Nucleolar transcription factor 1

Protein Summary

Description

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. 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]

Uniprot Accession IDs

• P17480
• A8K6R8

Gene Name

• UBTF

Ensembl ID

• ENST00000302904
• ENSP00000302640
• ENSG00000108312
• ENST00000343638
• ENSP00000345297
• ENST00000393606
• ENSP00000377231
• ENST00000436088
• ENSP00000390669
• ENST00000526094
• ENSP00000432925
• ENST00000529383
• ENSP00000435708
• ENST00000533177
• ENSP00000437180

Symbol

• UBF
• UBF1
• UBF
• UBF1
• UBF2
• UBF-1
• CONDBA
• NOR-90

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
kinase perturbation	1
transcription factor perturbation	0.98
disease perturbation	0.93
protein complex	0.89
hub protein	0.88

Protein Classes

No PANTHER Classes or DTO Classes found

IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 242.81   (req: < 5)

Gene RIFs: 35   (req: <= 3)

Antibodies: 371   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 242.81   (req: >= 5)

Gene RIFs: 35   (req: > 3)

Antibodies: 371   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 11

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Expression Data (0 Tissues)

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No expression data found

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Target Illumination GWAS Analytics (TIGA)

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (0)

No active ligands found

Protein-Protein Interactions (190)

Explore Interacting Targets

1 – 10 of 190

• See Interactions on String-DB

PIP4K2A

Tbio

Family:  Kinase

Novelty:  0.01130885

p_int:  0.999999963

p_ni:  3.7e-8

Score:  0.162

Data Source:  BioPlex,STRINGDB

CAMKV

Tbio

Family:  Kinase

Novelty:  0.17794181

p_int:  0.999999897

p_ni:  1.03e-7

Score:  0.168

Data Source:  BioPlex,STRINGDB

RAP1GDS1

Tbio

Family:  Enzyme

Novelty:  0.06140479

p_int:  0.999999877

p_ni:  1.23e-7

Data Source:  BioPlex

EDA

Tbio

Novelty:  0.00352464

p_int:  0.999986148

p_ni:  0.000013851

Data Source:  BioPlex

NOG

Tbio

Novelty:  0.0010373

p_int:  0.999898186

p_ni:  0.000101814

Data Source:  BioPlex

PES1

Tbio

Novelty:  0.07162845

p_int:  0.999857189

p_ni:  0.000142811

Score:  0.376

Data Source:  BioPlex,STRINGDB

MDK

Tchem

Novelty:  0.00145301

p_int:  0.999406368

p_ni:  0.000593632

Data Source:  BioPlex

CPNE7

Tbio

Novelty:  0.0748235

p_int:  0.998518871

p_ni:  0.001481129

Score:  0.186

Data Source:  BioPlex,STRINGDB

NKAPD1

Tdark

Novelty:  1.56979675

p_int:  0.997368219

p_ni:  0.002631781

Data Source:  BioPlex

HIST1H1E

Tbio

Novelty:  0.01125284

p_int:  0.996478003

p_ni:  0.003521997

Score:  0.304

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (16)

Reactome (10)

PathwayCommons (3)

WikiPathways (3)

Epigenetic regulation of gene expression (R-HSA-212165)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Epigenetic regulation of gene expression	118 targets	R-HSA-212165
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Negative epigenetic regulation of rRNA expression	79 targets	R-HSA-5250941
Reactome	NoRC negatively regulates rRNA expression	76 targets	R-HSA-427413
Reactome	RNA Polymerase I Promoter Clearance	80 targets	R-HSA-73854

Name	Explore in Pharos	Explore in Source
Epigenetic regulation of gene expression	118 targets	R-HSA-212165
Gene expression (Transcription)	1452 targets	R-HSA-74160
Negative epigenetic regulation of rRNA expression	79 targets	R-HSA-5250941
NoRC negatively regulates rRNA expression	76 targets	R-HSA-427413
RNA Polymerase I Promoter Clearance	80 targets	R-HSA-73854

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (15)

Functions (6)

Components (4)

Processes (5)

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10

1 – 6 of 6

GO Term	Evidence	Assigned by
chromatin binding	Inferred from Direct Assay (IDA)	UniProtKB
RNA polymerase I CORE element sequence-specific DNA binding	Inferred from Direct Assay (IDA)	UniProtKB
RNA polymerase I upstream control element sequence-specific DNA binding	Inferred from Direct Assay (IDA)	UniProtKB
scaffold protein binding	Inferred from Physical Interaction (IPI)	CAFA
RNA binding	Inferred from High Throughput Direct Assay (HDA)	UniProtKB
DNA-binding transcription factor activity, RNA polymerase II-specific	Inferred from Sequence Model (ISM)	NTNU_SB

Disease Associations ()

No disease associations found

GWAS Traits (26)

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1 – 5 of 26

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
reticulocyte count	EFO_0007986	6	6	9		98.8
mean corpuscular volume	EFO_0004526	2	4	4		98.1
reticulocyte measurement	EFO_0010700	3	4	6		97.8
mean reticulocyte volume	EFO_0010701	1	4	4		96.5
red blood cell distribution width	EFO_0005192	4	2	4		92.9

• Explore on Target Illumination GWAS Analytics (TIGA)

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1 – 5 of 26

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
reticulocyte count	EFO_0007986	9		98.8
mean corpuscular volume	EFO_0004526	4		98.1
reticulocyte measurement	EFO_0010700	6		97.8
mean reticulocyte volume	EFO_0010701	4		96.5
red blood cell distribution width	EFO_0005192	4		92.9

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Activator
Alternative splicing
Complete proteome
Disease mutation
DNA-binding
Mental retardation
Neurodegeneration
Nucleus

GWAS Trait Find Similar Targets

No Header	No Header
apolipoprotein A 1 measurement
appendicular lean mass
bipolar disorder
body fat distribution
body fat percentage
body height
bone density
femoral neck bone mineral density
HbA1c measurement
hematocrit

MGI Phenotype Find Similar Targets

No Header	No Header
embryo phenotype
mortality/aging

IDG Resources

No IDG generated resources found

Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	upstream binding transcription factor, RNA polymerase I		454726
Macaque	upstream binding transcription factor, RNA polymerase I		711597
Mouse	upstream binding transcription factor, RNA polymerase I	MGI:98512	21429
Rat	upstream binding transcription factor	RGD:3927	25574
Dog	upstream binding transcription factor, RNA polymerase I		480503

Species	Name	OMA	EggNOG	Inparanoid
Chimp	upstream binding transcription factor, RNA polymerase I
Macaque	upstream binding transcription factor, RNA polymerase I
Mouse	upstream binding transcription factor, RNA polymerase I
Rat	upstream binding transcription factor
Dog	upstream binding transcription factor, RNA polymerase I

Publication Statistics

PubMed Score 242.81

PubMed score by year

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PubTator Score 162.79

PubTator score by year

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Related Publications

Text Mined References (84)

GeneRif Annotations (35)

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PMID	Year	Title