Tbio RTN4 Reticulon-4

Protein Summary

Description

Developmental neurite growth regulatory factor with a role as a negative regulator of axon-axon adhesion and growth, and as a facilitator of neurite branching. Regulates neurite fasciculation, branching and extension in the developing nervous system. Involved in down-regulation of growth, stabilization of wiring and restriction of plasticity in the adult CNS. Regulates the radial migration of cortical neurons via an RTN4R-LINGO1 containing receptor complex (By similarity). Isoform 2 reduces the anti-apoptotic activity of Bcl-xl and Bcl-2. This is likely consecutive to their change in subcellular location, from the mitochondria to the endoplasmic reticulum, after binding and sequestration. Isoform 2 and isoform 3 inhibit BACE1 activity and amyloid precursor protein processing. Induces the formation and stabilization of endoplasmic reticulum (ER) tubules (PubMed:25612671, PubMed:24262037, PubMed:27619977). Regulates membrane morphogenesis in the ER by promoting tubular ER production (PubMed:27619977). Influences NE expansion, nuclear pore complex formation and proper localization of inner nuclear membrane proteins (PubMed:26906412). This gene belongs to the family of reticulon encoding genes. Reticulons are associated with the endoplasmic reticulum, and are involved in neuroendocrine secretion or in membrane trafficking in neuroendocrine cells. The product of this gene is a potent neurite outgrowth inhibitor which may also help block the regeneration of the central nervous system in higher vertebrates. Alternatively spliced transcript variants derived both from differential splicing and differential promoter usage and encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• Q9NQC3
• O94962
• Q7L7Q5
• Q7L7Q6
• Q7L7Q8
• Q8IUA4
• Q96B16
• Q9BXG5
• Q9H212
• Q9H3I3
• Q9UQ42
• Q9Y293
• Q9Y2Y7
• Q9Y5U6

Gene Name

• RTN4

Ensembl ID

• ENST00000317610
• ENSP00000322147
• ENSG00000115310
• ENST00000337526
• ENSP00000337838
• ENST00000357376
• ENSP00000349944
• ENST00000357732
• ENSP00000350365
• ENST00000394609
• ENSP00000378107
• ENST00000394611
• ENSP00000378109
• ENST00000404909
• ENSP00000385650
• ENST00000405240
• ENSP00000384471

Symbol

• KIAA0886
• NOGO
• ASY
• NSP
• NOGO
• RTN-X
• NSP-CL
• RTN4-A
• RTN4-C
• RTN4-B1
• RTN4-B2
• NI220/250
• Nbla00271
• Nbla10545

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
transcription factor perturbation	1
disease perturbation	0.99
kinase perturbation	0.99
transcription factor binding site profile	0.99
co-expressed gene	0.97

Protein Classes

DTO Classes

Reticulon-4 Receptor-like 2 / Reticulon-4 Receptor-like 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: 1376.91   (req: < 5)

Gene RIFs: 95   (req: <= 3)

Antibodies: 481   (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: 1376.91   (req: >= 5)

Gene RIFs: 95   (req: > 3)

Antibodies: 481   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 24

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

Find Targets by 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 (200)

Explore Interacting Targets

1 – 10 of 200

• See Interactions on String-DB

RTN1

Tbio

Novelty:  0.01828064

p_int:  0.99999989

p_ni:  1.1e-7

Score:  0.678

Data Source:  BioPlex,STRINGDB

ATP1B2

Tclin

Family:  Transporter

Novelty:  0.02641193

p_int:  0.999999181

p_ni:  8.19e-7

Score:  0.34

Data Source:  BioPlex,STRINGDB

TMEM128

Tdark

Novelty:  5.15874803

p_int:  0.999997691

p_ni:  0.000002309

Score:  0.641

Data Source:  BioPlex,STRINGDB

SPOP

Tbio

Novelty:  0.00663363

p_int:  0.999994994

p_ni:  0.000004969

p_wrong:  3.7e-8

Score:  0.267

Data Source:  BioPlex,STRINGDB

ARL6IP1

Tbio

Novelty:  0.07644032

p_int:  0.999994878

p_ni:  0.000005122

Score:  0.631

Data Source:  BioPlex,STRINGDB

RABAC1

Tbio

Novelty:  0.01749453

p_int:  0.999960586

p_ni:  0.000015125

p_wrong:  0.000024289

Score:  0.766

Data Source:  BioPlex,STRINGDB

TMEM208

Tdark

Novelty:  0.63059333

p_int:  0.99995144

p_ni:  0.000005721

p_wrong:  0.000042839

Score:  0.833

Data Source:  BioPlex,STRINGDB

METTL7B

Tbio

Family:  Enzyme

Novelty:  0.0873748

p_int:  0.999942679

p_ni:  0.000057192

p_wrong:  1.29e-7

Score:  0.227

Data Source:  BioPlex,STRINGDB

RTN2

Tbio

Novelty:  0.05184418

p_int:  0.999906476

p_ni:  0.000093394

p_wrong:  1.3e-7

Score:  0.653

Data Source:  BioPlex,STRINGDB

FAM241A

Tdark

Novelty:  1.04041354

p_int:  0.999720597

p_ni:  0.000279388

p_wrong:  1.5e-8

Score:  0.669

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

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

Pathways (8)

Reactome (5)

KEGG (1)

PathwayCommons (1)

WikiPathways (1)

Axonal growth inhibition (RHOA activation) (R-HSA-193634)

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Find Similar Targets

Items per page:

5

1 – 5 of 5

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Axonal growth inhibition (RHOA activation)	8 targets	R-HSA-193634
Reactome	Death Receptor Signalling	141 targets	R-HSA-73887
Reactome	Signal Transduction	2704 targets	R-HSA-162582
Reactome	p75 NTR receptor-mediated signalling	97 targets	R-HSA-193704
Reactome	p75NTR regulates axonogenesis	9 targets	R-HSA-193697

Name	Explore in Pharos	Explore in Source
Axonal growth inhibition (RHOA activation)	8 targets	R-HSA-193634
Death Receptor Signalling	141 targets	R-HSA-73887
Signal Transduction	2704 targets	R-HSA-162582
p75 NTR receptor-mediated signalling	97 targets	R-HSA-193704
p75NTR regulates axonogenesis	9 targets	R-HSA-193697

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (35)

Functions (3)

Components (11)

Processes (21)

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Items per page:

10

1 – 3 of 3

GO Term	Evidence	Assigned by
ubiquitin protein ligase binding	Inferred from Physical Interaction (IPI)	CAFA
cadherin binding	Inferred from High Throughput Direct Assay (HDA)	BHF-UCL
RNA binding	Inferred from High Throughput Direct Assay (HDA)	UniProtKB

Disease Associations ()

No disease associations found

GWAS Traits (10)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 10

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean platelet volume	EFO_0004584	3	2	3		89.7
body mass index	EFO_0004340	2	2	2		78.7
lymphocyte count	EFO_0004587	2	2	2		70.4
body height	EFO_0004339	1	1	1		53.3
systolic blood pressure	EFO_0006335	2	2	1	5.7	40.5

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 5 of 10

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean platelet volume	EFO_0004584	3		89.7
body mass index	EFO_0004340	2		78.7
lymphocyte count	EFO_0004587	2		70.4
body height	EFO_0004339	1		53.3
systolic blood pressure	EFO_0006335	1	5.7	40.5

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Alternative splicing
Complete proteome
Direct protein sequencing
Endoplasmic reticulum
Membrane
Neurogenesis
Phosphoprotein
Polymorphism

GWAS Trait Find Similar Targets

No Header	No Header
body height
body mass index
diastolic blood pressure
lymphocyte count
mathematical ability
mean platelet volume
platelet count
sex hormone-binding globulin measurement
systolic blood pressure
type II diabetes mellitus

MGI Phenotype Find Similar Targets

No Header	No Header
cellular phenotype
mortality/aging
nervous system phenotype

IDG Resources

No IDG generated resources found

Orthologs (10)

1 – 5 of 10

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Macaque	reticulon 4		619181
Mouse	reticulon 4	MGI:1915835	68585
Rat	reticulon 4	RGD:620989	83765
Dog	reticulon 4	VGNC:54541	474598
Horse	reticulon 4		100066612

Species	Name	OMA	EggNOG	Inparanoid
Macaque	reticulon 4
Mouse	reticulon 4
Rat	reticulon 4
Dog	reticulon 4
Horse	reticulon 4

Publication Statistics

PubMed Score 1376.91

PubMed score by year

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PubTator Score 1309.30

PubTator score by year

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Related Publications

Text Mined References (149)

GeneRif Annotations (95)

Items per page:

10

0 of 0

PMID	Year	Title