Tbio RNPS1 RNA-binding protein with serine-rich domain 1

Protein Summary

Description

Part of pre- and post-splicing multiprotein mRNP complexes. Auxiliary component of the splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junction on mRNAs. The EJC is a dynamic structure consisting of core proteins and several peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. Component of the ASAP and PSAP complexes which bind RNA in a sequence-independent manner and are proposed to be recruited to the EJC prior to or during the splicing process and to regulate specific excision of introns in specific transcription subsets. The ASAP complex can inhibit RNA processing during in vitro splicing reactions. The ASAP complex promotes apoptosis and is disassembled after induction of apoptosis. Enhances the formation of the ATP-dependent A complex of the spliceosome. Involved in both constitutive splicing and, in association with SRP54 and TRA2B/SFRS10, in distinctive modulation of alternative splicing in a substrate-dependent manner. Involved in the splicing modulation of BCL2L1/Bcl-X (and probably other apoptotic genes); specifically inhibits formation of proapoptotic isoforms such as Bcl-X(S); the activity is different from the established EJC assembly and function. Participates in mRNA 3'-end cleavage. Involved in UPF2-dependent nonsense-mediated decay (NMD) of mRNAs containing premature stop codons. Also mediates increase of mRNA abundance and translational efficiency. Binds spliced mRNA 20-25 nt upstream of exon-exon junctions. This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein binds to the mRNA and remains bound after nuclear export, acting as a nucleocytoplasmic shuttling protein. This protein contains many serine residues. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2013]

Uniprot Accession IDs

• Q15287
• A8K1P0
• B4DDU8
• B4DZU7
• B7ZA17
• O75308
• Q32P25
• Q8WY42
• Q9NYG3

Gene Name

• RNPS1

Ensembl ID

• ENST00000301730
• ENSP00000301730
• ENSG00000205937
• ENST00000320225
• ENSP00000315859
• ENST00000397086
• ENSP00000380275
• ENST00000565678
• ENSP00000457723
• ENST00000566458
• ENSP00000456352
• ENST00000568631
• ENSP00000457820

Symbol

• LDC2
• E5.1

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
co-expressed gene	0.97
kinase perturbation	0.96
histone modification site profile	0.85
interacting protein	0.85
transcription factor binding site profile	0.84

Protein Classes

PANTHER Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Mrna Processing Factor / Mrna Splicing Factor / Rna-binding Protein With Serine-rich Domain 1

DTO Classes

Protein / Nucleic Acid Binding / Rna Binding Protein / Mrna Processing Factor / Mrna Splicing Factor / Rna-binding Protein With Serine-rich Domain 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: 31.02   (req: < 5)

Gene RIFs: 7   (req: <= 3)

Antibodies: 69   (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: 31.02   (req: >= 5)

Gene RIFs: 7   (req: > 3)

Antibodies: 69   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 12

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

Related Tools

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 (411)

Explore Interacting Targets

1 – 10 of 411

• See Interactions on String-DB

EPB41L2

Tbio

Novelty:  0.0311733

p_int:  0.999992959

p_ni:  0.000007041

Score:  0.307

Data Source:  BioPlex,STRINGDB

EPB41L3

Tbio

Novelty:  0.00915217

p_int:  0.999992622

p_ni:  0.000007378

Data Source:  BioPlex

SAP18

Tbio

Family:  Enzyme

Novelty:  0.03918373

p_int:  0.999979229

p_ni:  0.000020771

Score:  0.997

Data Source:  BioPlex,STRINGDB

EPB41L1

Tbio

Novelty:  0.02937451

p_int:  0.999979069

p_ni:  0.000020931

Data Source:  BioPlex

SNIP1

Tbio

Novelty:  0.01865867

p_int:  0.99993574

p_ni:  0.00006426

Score:  0.304

Data Source:  BioPlex,STRINGDB

CAMKV

Tbio

Family:  Kinase

Novelty:  0.17794181

p_int:  0.999935389

p_ni:  0.000064611

Score:  0.184

Data Source:  BioPlex,STRINGDB

PIP4K2A

Tbio

Family:  Kinase

Novelty:  0.01130885

p_int:  0.999910131

p_ni:  0.000089869

Data Source:  BioPlex

PNN

Tbio

Novelty:  0.01395394

p_int:  0.9997542

p_ni:  0.0002458

Score:  0.989

Data Source:  BioPlex,STRINGDB

LUC7L2

Tdark

Novelty:  0.36989457

p_int:  0.999667499

p_ni:  0.000332501

Score:  0.198

Data Source:  BioPlex,STRINGDB

NKAPD1

Tdark

Novelty:  1.56979675

p_int:  0.999494101

p_ni:  0.000505899

Data Source:  BioPlex

Nearest Tclin Targets

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

Pathways (19)

Reactome (16)

KEGG (2)

WikiPathways (1)

Axon guidance (R-HSA-422475)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Axon guidance	533 targets	R-HSA-422475
Reactome	Developmental Biology	1055 targets	R-HSA-1266738
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Metabolism of RNA	686 targets	R-HSA-8953854
Reactome	Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)	117 targets	R-HSA-975957

Name	Explore in Pharos	Explore in Source
Axon guidance	533 targets	R-HSA-422475
Developmental Biology	1055 targets	R-HSA-1266738
Gene expression (Transcription)	1452 targets	R-HSA-74160
Metabolism of RNA	686 targets	R-HSA-8953854
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)	117 targets	R-HSA-975957

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (18)

Functions (2)

Components (6)

Processes (10)

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1 – 2 of 2

GO Term	Evidence	Assigned by
mRNA 3'-UTR binding	Inferred from Direct Assay (IDA)	UniProtKB
RNA binding	Inferred from High Throughput Direct Assay (HDA)	UniProtKB

Disease Associations ()

No disease associations found

GWAS Traits (8)

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1 – 5 of 8

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
alkaline phosphatase measurement	EFO_0004533	2	2	1	6	91
BMI-adjusted hip circumference	EFO_0008039	2	4	6		74.1
body height	EFO_0004339	2	2	2		70.9
serum gamma-glutamyl transferase measurement	EFO_0004532	1	1	1		36.9
appendicular lean mass	EFO_0004980	1	1	1		27.3

• Explore on Target Illumination GWAS Analytics (TIGA)

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1 – 5 of 8

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
alkaline phosphatase measurement	EFO_0004533	1	6	91
BMI-adjusted hip circumference	EFO_0008039	6		74.1
body height	EFO_0004339	2		70.9
serum gamma-glutamyl transferase measurement	EFO_0004532	1		36.9
appendicular lean mass	EFO_0004980	1		27.3

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Alternative splicing
Complete proteome
Cytoplasm
Isopeptide bond
mRNA processing
mRNA splicing
Nonsense-mediated mRNA decay
Nucleus

GWAS Trait Find Similar Targets

No Header	No Header
alkaline phosphatase measurement
appendicular lean mass
atrial fibrillation
birth weight
BMI-adjusted hip circumference
BMI-adjusted waist circumference
body height
serum gamma-glutamyl transferase measurement

IDG Resources

No IDG generated resources found

Orthologs (13)

1 – 5 of 13

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	RNA binding protein with serine rich domain 1	VGNC:9391	750086
Macaque	RNA binding protein with serine rich domain 1		695816
Mouse	ribonucleic acid binding protein S1	MGI:97960	19826
Rat	RNA binding protein with serine rich domain 1	RGD:1307522	287113
Dog	RNA binding protein with serine rich domain 1	VGNC:45683	479880

Species	Name	OMA	EggNOG	Inparanoid
Chimp	RNA binding protein with serine rich domain 1
Macaque	RNA binding protein with serine rich domain 1
Mouse	ribonucleic acid binding protein S1
Rat	RNA binding protein with serine rich domain 1
Dog	RNA binding protein with serine rich domain 1

Publication Statistics

PubMed Score 31.02

PubMed score by year

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PubTator Score 58.64

PubTator score by year

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Related Publications

Text Mined References (47)

GeneRif Annotations (7)

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PMID	Year	Title