Tbio SNRPB Small nuclear ribonucleoprotein-associated proteins B and B'

Protein Summary

Description

Plays role in pre-mRNA splicing as core component of the SMN-Sm complex that mediates spliceosomal snRNP assembly and as component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome (PubMed:11991638, PubMed:18984161, PubMed:19325628, PubMed:25555158, PubMed:26912367, PubMed:28502770, PubMed:28781166, PubMed:28076346). Component of both the pre-catalytic spliceosome B complex and activated spliceosome C complexes (PubMed:11991638, PubMed:28502770, PubMed:28781166, PubMed:28076346). Is also a component of the minor U12 spliceosome (PubMed:15146077). As part of the U7 snRNP it is involved in histone pre-mRNA 3'-end processing (PubMed:12975319). The protein encoded by this gene is one of several nuclear proteins that are found in common among U1, U2, U4/U6, and U5 small ribonucleoprotein particles (snRNPs). These snRNPs are involved in pre-mRNA splicing, and the encoded protein may also play a role in pre-mRNA splicing or snRNP structure. Autoantibodies from patients with systemic lupus erythematosus frequently recognize epitopes on the encoded protein. Two transcript variants encoding different isoforms (B and B') have been found for this gene. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• P14678
• Q15490
• Q6IB35
• Q9UIS5
• snRNP-B

Gene Name

• SNRPB

Ensembl ID

• ENST00000381342
• ENSP00000370746
• ENSG00000125835
• ENST00000438552
• ENSP00000412566

Symbol

• COD
• SNRPB1
• COD
• CCMS
• SNRPB1
• SmB/B'
• Sm-B/B'
• snRNP-B
• SmB/SmB'

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
disease perturbation	0.95
interacting protein	0.92
kinase perturbation	0.88
transcription factor binding site profile	0.82
protein complex	0.81

Protein Classes

PANTHER Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Mrna Processing Factor / Mrna Splicing Factor / Small Nuclear Ribonucleoprotein-associated Proteins B And B'

DTO Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Mrna Processing Factor / Mrna Splicing Factor / Small Nuclear Ribonucleoprotein-associated Proteins B And B'

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: 67.3   (req: < 5)

Gene RIFs: 9   (req: <= 3)

Antibodies: 148   (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: 67.3   (req: >= 5)

Gene RIFs: 9   (req: > 3)

Antibodies: 148   (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

Expression Data (0 Tissues)

tutorial

No expression data found

Protein Sequence and Structure

Residue Counts

Protein 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 (0)

No active ligands found

Protein-Protein Interactions (431)

Explore Interacting Targets

1 – 10 of 431

• See Interactions on String-DB

SNRPN

Tbio

Novelty:  0.002157

p_int:  0.999999998

p_ni:  2e-9

Score:  0.9

Data Source:  BioPlex,STRINGDB

CMTR2

Tbio

Family:  Enzyme

Novelty:  0.11208282

p_int:  0.999999864

p_ni:  1.36e-7

Data Source:  BioPlex

FARP1

Tbio

Novelty:  0.04040696

p_int:  0.999999848

p_ni:  1.51e-7

Score:  0.161

Data Source:  BioPlex,STRINGDB

RNPC3

Tbio

Novelty:  0.07154673

p_int:  0.999995605

p_ni:  0.000004394

Score:  0.967

Data Source:  BioPlex,STRINGDB

CLNS1A

Tbio

Novelty:  0.01824362

p_int:  0.999988378

p_ni:  0.000011622

Score:  0.992

Data Source:  BioPlex,STRINGDB

PAXBP1

Tbio

Novelty:  0.13631396

p_int:  0.999977239

p_ni:  0.000022761

Score:  0.157

Data Source:  BioPlex,STRINGDB

DPP8

Tchem

Family:  Enzyme

Novelty:  0.00678793

p_int:  0.999963474

p_ni:  0.000036526

Data Source:  BioPlex

PDCD7

Tbio

Novelty:  0.15531712

p_int:  0.999945751

p_ni:  0.000054246

p_wrong:  3e-9

Score:  0.9

Data Source:  BioPlex,STRINGDB

TFIP11

Tbio

Novelty:  0.01546496

p_int:  0.999929607

p_ni:  0.000070393

Score:  0.942

Data Source:  BioPlex,STRINGDB

ZRSR2

Tbio

Novelty:  0.03449891

p_int:  0.999913179

p_ni:  0.000081195

p_wrong:  0.000005626

Score:  0.904

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

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

Pathways (16)

Reactome (13)

KEGG (2)

WikiPathways (1)

Gene expression (Transcription) (R-HSA-74160)

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1 – 5 of 13

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Metabolism of RNA	686 targets	R-HSA-8953854
Reactome	Metabolism of non-coding RNA	53 targets	R-HSA-194441
Reactome	Processing of Capped Intron-Containing Pre-mRNA	241 targets	R-HSA-72203
Reactome	Processing of Capped Intronless Pre-mRNA	28 targets	R-HSA-75067

Name	Explore in Pharos	Explore in Source
Gene expression (Transcription)	1452 targets	R-HSA-74160
Metabolism of RNA	686 targets	R-HSA-8953854
Metabolism of non-coding RNA	53 targets	R-HSA-194441
Processing of Capped Intron-Containing Pre-mRNA	241 targets	R-HSA-72203
Processing of Capped Intronless Pre-mRNA	28 targets	R-HSA-75067

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (32)

Functions (4)

Components (21)

Processes (7)

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10

1 – 4 of 4

GO Term	Evidence	Assigned by
RNA binding	Inferred from Physical Interaction (IPI)	BHF-UCL
telomerase RNA binding	Inferred from Physical Interaction (IPI)	BHF-UCL
U2 snRNA binding	Inferred from Physical Interaction (IPI)	BHF-UCL
histone pre-mRNA DCP binding	Inferred from Electronic Annotation (IEA)	Ensembl

Disease Associations (null)

No disease associations found

GWAS Traits (2)

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5

1 – 2 of 2

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
Tuberculosis	Orphanet_3389	1	1	0	1.3	49.5
Alzheimer's disease	EFO_0000249	1	1	1		17.8

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 2 of 2

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
Tuberculosis	Orphanet_3389	0	1.3	49.5
Alzheimer's disease	EFO_0000249	1		17.8

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Alternative splicing
Complete proteome
Cytoplasm
Direct protein sequencing
Disease mutation
Mental retardation
Methylation
mRNA processing
mRNA splicing

GWAS Trait Find Similar Targets

No Header	No Header
Alzheimer's disease
Tuberculosis

IDG Resources

No IDG generated resources found

Orthologs (7)

1 – 5 of 7

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	small nuclear ribonucleoprotein polypeptides B and B1	VGNC:9994	470014
Horse	small nuclear ribonucleoprotein polypeptides B and B1	VGNC:23395	100053021
Cow	small nuclear ribonucleoprotein polypeptides B and B1	VGNC:35076	613304
Anole lizard	small nuclear ribonucleoprotein-associated protein B'		100565606
Xenopus	small nuclear ribonucleoprotein polypeptides B and B1	XB-GENE-5877283	407857

Species	Name	OMA	EggNOG	Inparanoid
Chimp	small nuclear ribonucleoprotein polypeptides B and B1
Horse	small nuclear ribonucleoprotein polypeptides B and B1
Cow	small nuclear ribonucleoprotein polypeptides B and B1
Anole lizard	small nuclear ribonucleoprotein-associated protein B'
Xenopus	small nuclear ribonucleoprotein polypeptides B and B1

Publication Statistics

PubMed Score 67.30

PubMed score by year

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PubTator Score 161.99

PubTator score by year

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Related Publications

Text Mined References (78)

GeneRif Annotations (9)

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PMID	Year	Title