Tchem PBRM1 Protein polybromo-1

Protein Classes

DTO Classes

Protein / Epigenetic Regulator / Reader / Bromodomain / 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

Related Tools

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

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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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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: 177.09   (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: 177.09   (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: 9

Tclin

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

Active Drug: 0

Active Ligands (9)

Explore Active Ligands

1 – 9 of 9

CHEMBL2177300

PBRM1Tchem TF; Epigenetic

IC50 : 6.2

CHEMBL3822689

PBRM1Tchem TF; Epigenetic

Kd : 6.91

CHEMBL3819245

PBRM1Tchem TF; Epigenetic

Kd : 7.55

CHEMBL3752911

PBRM1Tchem TF; Epigenetic

Kd : 7.32000017

CHEMBL3823055

PBRM1Tchem TF; Epigenetic

Kd : 6.77

CHEMBL3824067

PBRM1Tchem TF; Epigenetic

Kd : 6.85

CHEMBL3823132

PBRM1Tchem TF; Epigenetic

Kd : 6.86

CHEMBL3823524

PBRM1Tchem TF; Epigenetic

Kd : 6.9

CHEMBL3899245

PBRM1Tchem TF; Epigenetic

Kd : 7.37

GWAS Traits (18)

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GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
BMI-adjusted waist-hip ratio	EFO_0007788	5	3	12		98.9
schizophrenia	EFO_0000692	3	1	0	1.1	88.1
red blood cell distribution width	EFO_0005192	2	2	2		83.1
red blood cell density measurement	EFO_0007978	1	1	1		74.2
adiponectin measurement	EFO_0004502	1	1	1		73

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
BMI-adjusted waist-hip ratio	EFO_0007788	12		98.9
schizophrenia	EFO_0000692	0	1.1	88.1
red blood cell distribution width	EFO_0005192	2		83.1
red blood cell density measurement	EFO_0007978	1		74.2
adiponectin measurement	EFO_0004502	1		73

Reset Zoom  Beta Count   Odds Ratio

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

Protein Structure (22 Structures, 1 AlphaFold Model)

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q86U86-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 22

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (10)

Reactome (8)

KEGG (1)

WikiPathways (1)

Chromatin modifying enzymes (R-HSA-3247509)

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Find Similar Targets

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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

Gene Ontology Terms (11)

Functions (2)

Components (3)

Processes (6)

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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

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

Publication Statistics

PubMed Score  177.09

PubMed score by year

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PubTator Score  483.58

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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UniProt Keyword Find Similar Targets

3D-structure
Acetylation
Alternative splicing
Bromodomain
Chromatin regulator
Complete proteome
DNA-binding
Isopeptide bond
Nucleus
Phosphoprotein

GWAS Trait Find Similar Targets

adiponectin measurement
appendicular lean mass
BMI-adjusted adiponectin measurement
BMI-adjusted waist circumference
BMI-adjusted waist-hip ratio
body fat distribution
feeling nervous measurement
insomnia measurement
intelligence
lymphocyte count

MGI Phenotype Find Similar Targets

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