Tchem PBRM1 Protein polybromo-1

Protein Summary

Description

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Required for the stability of the SWI/SNF chromatin remodeling complex SWI/SNF-B (PBAF). Acts as a negative regulator of cell proliferation. This locus encodes a subunit of ATP-dependent chromatin-remodeling complexes. The encoded protein has been identified as in integral component of complexes necessary for ligand-dependent transcriptional activation by nuclear hormone receptors. Mutations at this locus have been associated with primary clear cell renal cell carcinoma. [provided by RefSeq, Feb 2012]

Uniprot Accession IDs

• Q86U86
• A1L381
• A1L382
• A4FUJ7
• Q1RMD1
• Q1RMD2
• Q96MS2
• Q9H2T3
• Q9H2T4
• Q9H2T5
• Q9H301
• Q9H314
• hPB1

Gene Name

• PBRM1

Ensembl ID

• ENST00000296302
• ENSP00000296302
• ENSG00000163939
• ENST00000337303
• ENSP00000338302
• ENST00000356770
• ENSP00000349213
• ENST00000394830
• ENSP00000378307
• ENST00000409057
• ENSP00000386593
• ENST00000409114
• ENSP00000386643
• ENST00000409767
• ENSP00000386601
• ENST00000410007
• ENSP00000386529
• ENST00000412587
• ENSP00000404579

Symbol

• BAF180
• PB1
• PB1
• BAF180

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
interacting protein	0.88
virus perturbation	0.88
kinase perturbation	0.81
microRNA	0.76
transcription factor	0.76

Protein Classes

DTO Classes

Protein / Epigenetic Regulator / Reader / Bromodomain / Protein Polybromo-1

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: 188.24   (req: < 5)

Gene RIFs: 55   (req: <= 3)

Antibodies: 152   (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: 188.24   (req: >= 5)

Gene RIFs: 55   (req: > 3)

Antibodies: 152   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 8

Tchem

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

Active Ligands: 10

Tclin

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

Active Drug: 0

Expression Data (0 Tissues)

tutorial

No expression data found

Protein Sequence and Structure

Residue Counts

Protein Sequence

Find Targets by Sequence

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Related Tools (4)

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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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 (10)

Explore Active Ligands

1 – 10 of 10

CHEMBL2177300

PBRM1Tchem TF; Epigenetic

pKd : 7.7

CHEMBL3822689

PBRM1Tchem TF; Epigenetic

pKd : 6.58

PFI-3

PBRM1Tchem TF; Epigenetic

pKd : 7.05

CHEMBL3819245

PBRM1Tchem TF; Epigenetic

pKd : 7.31

PFI-3

PBRM1Tchem TF; Epigenetic

pKd : 7.05

CHEMBL3899245

PBRM1Tchem TF; Epigenetic

pKd : 7.37

CHEMBL3823524

PBRM1Tchem TF; Epigenetic

pKd : 6.9

CHEMBL3823132

PBRM1Tchem TF; Epigenetic

pKd : 6.86

CHEMBL3824067

PBRM1Tchem TF; Epigenetic

pKd : 6.85

CHEMBL3823055

PBRM1Tchem TF; Epigenetic

pKd : 6.77

Protein-Protein Interactions (150)

Explore Interacting Targets

1 – 10 of 150

• See Interactions on String-DB

BCL7C

Tdark

Novelty:  0.31203802

p_int:  0.999998684

p_ni:  0.000001316

Score:  0.832

Data Source:  BioPlex,STRINGDB

SMARCC2

Tbio

Family:  TF; Epigenetic

Novelty:  0.02625321

p_int:  0.999998385

p_ni:  0.000001615

Score:  0.999

Data Source:  BioPlex,STRINGDB

SMARCB1

Tbio

Novelty:  0.00116387

p_int:  0.999998322

p_ni:  0.000001678

Score:  0.995

Data Source:  BioPlex,STRINGDB

BCL7A

Tbio

Novelty:  0.07026394

p_int:  0.999980854

p_ni:  0.000019146

Score:  0.808

Data Source:  BioPlex,STRINGDB

DPF3

Tbio

Family:  Epigenetic

Novelty:  0.069151

p_int:  0.999965334

p_ni:  0.000034666

Score:  0.987

Data Source:  BioPlex,STRINGDB

SMARCE1

Tbio

Family:  TF

Novelty:  0.01748089

p_int:  0.999926179

p_ni:  0.000073821

Score:  0.995

Data Source:  BioPlex,STRINGDB

NUP50

Tbio

Novelty:  0.03424725

p_int:  0.999910299

p_ni:  0.000089701

Score:  0.632

Data Source:  BioPlex,STRINGDB

SMARCD1

Tbio

Novelty:  0.03176642

p_int:  0.999866448

p_ni:  0.000133551

p_wrong:  1e-9

Score:  0.996

Data Source:  BioPlex,STRINGDB

RPL37

Tbio

Novelty:  0.03935854

p_int:  0.992390059

p_ni:  0.007609941

Data Source:  BioPlex

RPL11

Tbio

Novelty:  0.00448962

p_int:  0.944417554

p_ni:  0.055582446

Data Source:  BioPlex

Nearest Tclin Targets

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

Pathways (10)

Reactome (8)

KEGG (1)

WikiPathways (1)

Chromatin modifying enzymes (R-HSA-3247509)

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5

1 – 5 of 8

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Chromatin modifying enzymes	238 targets	R-HSA-3247509
Reactome	Chromatin organization	238 targets	R-HSA-4839726
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Generic Transcription Pathway	1195 targets	R-HSA-212436
Reactome	RMTs methylate histone arginines	49 targets	R-HSA-3214858

Name	Explore in Pharos	Explore in Source
Chromatin modifying enzymes	238 targets	R-HSA-3247509
Chromatin organization	238 targets	R-HSA-4839726
Gene expression (Transcription)	1452 targets	R-HSA-74160
Generic Transcription Pathway	1195 targets	R-HSA-212436
RMTs methylate histone arginines	49 targets	R-HSA-3214858

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (11)

Functions (2)

Components (3)

Processes (6)

Find Similar Targets

Items per page:

10

1 – 2 of 2

GO Term	Evidence	Assigned by
chromatin binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
DNA binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW

Disease Associations (null)

No disease associations found

GWAS Traits (52)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 52

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
BMI-adjusted waist-hip ratio	EFO_0007788	14	21	42		97.9
triglyceride measurement	EFO_0004530	2	3	3		93
high density lipoprotein cholesterol measurement	EFO_0004612	5	5	7		91.9
waist-hip ratio	EFO_0004343	4	18	21		91.9
adiponectin measurement	EFO_0004502	3	3	3		89.1

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 5 of 52

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
BMI-adjusted waist-hip ratio	EFO_0007788	42		97.9
triglyceride measurement	EFO_0004530	3		93
high density lipoprotein cholesterol measurement	EFO_0004612	7		91.9
waist-hip ratio	EFO_0004343	21		91.9
adiponectin measurement	EFO_0004502	3		89.1

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Alternative splicing
Bromodomain
Chromatin regulator
Complete proteome
DNA-binding
Isopeptide bond
Nucleus
Phosphoprotein

GWAS Trait Find Similar Targets

No Header	No Header
adiponectin measurement
apolipoprotein A 1 measurement
apolipoprotein B measurement
appendicular lean mass
bipolar disorder
BMI-adjusted adiponectin measurement
BMI-adjusted waist circumference
BMI-adjusted waist-hip ratio
body fat distribution
body height

MGI Phenotype Find Similar Targets

No Header	No Header
behavior/neurological phenotype
cardiovascular system phenotype
cellular phenotype
embryo phenotype
hematopoietic system phenotype
immune system phenotype
liver/biliary system phenotype
mortality/aging
renal/urinary system phenotype
respiratory system phenotype

IDG Resources

No IDG generated resources found

Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	polybromo 1	VGNC:2500	460430
Macaque	polybromo 1		696361
Mouse	polybromo 1	MGI:1923998	66923
Rat	polybromo 1	RGD:1565549	306254
Dog	polybromo 1	VGNC:44285	476593

Species	Name	OMA	EggNOG	Inparanoid
Chimp	polybromo 1
Macaque	polybromo 1
Mouse	polybromo 1
Rat	polybromo 1
Dog	polybromo 1

Publication Statistics

PubMed Score 188.24

PubMed score by year

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PubTator Score 483.58

PubTator score by year

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Related Publications

Text Mined References (78)

GeneRif Annotations (55)

Items per page:

10

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PMID	Year	Title