Tbio SNX2 Sorting nexin-2

Protein Summary

Description

Involved in several stages of intracellular trafficking. Interacts with membranes containing phosphatidylinositol 3-phosphate (PtdIns(3P)) or phosphatidylinositol 3,5-bisphosphate (PtdIns(3,5)P2) (PubMed:16179610). Acts in part as component of the retromer membrane-deforming SNX-BAR subcomplex (PubMed:17101778). The SNX-BAR retromer mediates retrograde transport of cargo proteins from endosomes to the trans-Golgi network (TGN) and is involved in endosome-to-plasma membrane transport for cargo protein recycling. The SNX-BAR subcomplex functions to deform the donor membrane into a tubular profile called endosome-to-TGN transport carrier (ETC) (Probable). Can sense membrane curvature and has in vitro vesicle-to-membrane remodeling activity (PubMed:23085988). Required for retrograde endosome-to-TGN transport of TGN38 (PubMed:20138391). Promotes KALRN- and RHOG-dependent but retromer-independent membrane remodeling such as lamellipodium formation; the function is dependent on GEF activity of KALRN (PubMed:20604901). This gene belongs to the sorting nexin family whose members contain the phosphoinositide-binding phox (PX) domain. The encoded protein is a component of the retromer complex which plays a role in protein sorting in the endocytic pathway. This protein may form oligomeric complexes with other family members. Alternate splicing results in multiple transcript variants of this gene. Pseudogenes associated with this gene are located on chromosomes 1 and 7. [provided by RefSeq, May 2013]

Uniprot Accession IDs

• O60749
• B3KN44
• B4DEK4
• B7Z408
• O43650
• P82862
• Q53XK8
• Q597H6
• Q9BTS8

Gene Name

• SNX2

Ensembl ID

• ENST00000379516
• ENSP00000368831
• ENSG00000205302
• ENST00000514949
• ENSP00000421663

Symbol

• TRG-9

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
interacting protein	0.99
disease perturbation	0.9
protein complex	0.68
histone modification site profile	0.67
tissue sample	0.65

Protein Classes

PANTHER Classes

Protein / Membrane Traffic Protein / Membrane Trafficking Regulatory Protein / Sorting Nexin-2

DTO Classes

Protein / Transporter / Membrane Trafficking Regulatory Protein / Sorting Nexin-2

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: 24.13   (req: < 5)

Gene RIFs: 8   (req: <= 3)

Antibodies: 164   (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: 24.13   (req: >= 5)

Gene RIFs: 8   (req: > 3)

Antibodies: 164   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 14

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

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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 (166)

Explore Interacting Targets

1 – 10 of 166

• See Interactions on String-DB

SNX1

Tbio

Novelty:  0.01267973

p_int:  0.999997789

p_ni:  0.000002211

Score:  0.976

Data Source:  BioPlex,STRINGDB

C1orf87

Tbio

Novelty:  0.03162594

p_int:  0.999992567

p_ni:  0.000007433

Score:  0.239

Data Source:  BioPlex,STRINGDB

KLHL1

Tbio

Novelty:  0.05206893

p_int:  0.999962503

p_ni:  0.000037497

Data Source:  BioPlex

HYOU1

Tbio

Novelty:  0.00833649

p_int:  0.999431336

p_ni:  0.000568664

Data Source:  BioPlex

POTEB

Tdark

Novelty:  0.48864918

p_int:  0.99792886

p_ni:  0.00207114

Data Source:  BioPlex

HENMT1

Tdark

Family:  Enzyme

Novelty:  0.17427834

p_int:  0.997867296

p_ni:  0.002132704

Score:  0.167

Data Source:  BioPlex,STRINGDB

VAPB

Tbio

Novelty:  0.00542377

p_int:  0.997852536

p_ni:  0.002147464

Score:  0.315

Data Source:  BioPlex,STRINGDB

C11orf42

Tdark

Novelty:  3.71428571

p_int:  0.991861947

p_ni:  0.008138053

Score:  0.214

Data Source:  BioPlex,STRINGDB

TCTEX1D2

Tbio

Novelty:  0.15075459

p_int:  0.989933735

p_ni:  0.010066265

Score:  0.181

Data Source:  BioPlex,STRINGDB

DNM3

Tbio

Novelty:  0.02365643

p_int:  0.989805942

p_ni:  0.010194057

p_wrong:  1e-9

Score:  0.301

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

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

Pathways (7)

Reactome (4)

KEGG (1)

PathwayCommons (2)

Golgi Associated Vesicle Biogenesis (R-HSA-432722)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Golgi Associated Vesicle Biogenesis	56 targets	R-HSA-432722
Reactome	Membrane Trafficking	612 targets	R-HSA-199991
Reactome	Vesicle-mediated transport	725 targets	R-HSA-5653656
Reactome	trans-Golgi Network Vesicle Budding	72 targets	R-HSA-199992

Name	Explore in Pharos	Explore in Source
Golgi Associated Vesicle Biogenesis	56 targets	R-HSA-432722
Membrane Trafficking	612 targets	R-HSA-199991
Vesicle-mediated transport	725 targets	R-HSA-5653656
trans-Golgi Network Vesicle Budding	72 targets	R-HSA-199992

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (25)

Functions (8)

Components (11)

Processes (6)

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1 – 8 of 8

GO Term	Evidence	Assigned by
epidermal growth factor receptor binding	Inferred from Direct Assay (IDA)	UniProtKB
insulin receptor binding	Inferred from Direct Assay (IDA)	UniProtKB
leptin receptor binding	Inferred from Direct Assay (IDA)	UniProtKB
transferrin receptor binding	Inferred from Direct Assay (IDA)	UniProtKB
protein heterodimerization activity	Inferred from Physical Interaction (IPI)	ParkinsonsUK-UCL
protein homodimerization activity	Inferred from Physical Interaction (IPI)	ParkinsonsUK-UCL
cadherin binding	Inferred from High Throughput Direct Assay (HDA)	BHF-UCL
phosphatidylinositol binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central

Disease Associations ()

No disease associations found

GWAS Traits (5)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 5

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean platelet volume	EFO_0004584	2	2	2		90.9
platelet crit	EFO_0007985	2	2	2		90.4
myeloid white cell count	EFO_0007988	1	1	1		56.6
neutrophil count	EFO_0004833	2	1	2		10.2
leukocyte count	EFO_0004308	1	1	1		9.9

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean platelet volume	EFO_0004584	2		90.9
platelet crit	EFO_0007985	2		90.4
myeloid white cell count	EFO_0007988	1		56.6
neutrophil count	EFO_0004833	2		10.2
leukocyte count	EFO_0004308	1		9.9

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UniProt Keyword Find Similar Targets

No Header	No Header
Acetylation
Alternative splicing
Cell projection
Complete proteome
Endosome
Lipid-binding
Membrane
Phosphoprotein
Protein transport
Reference proteome

GWAS Trait Find Similar Targets

No Header	No Header
leukocyte count
mean platelet volume
myeloid white cell count
neutrophil count
platelet crit

IDG Resources

No IDG generated resources found

Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	sorting nexin 2	VGNC:4170	462022
Macaque	sorting nexin 2		700507
Mouse	sorting nexin 2	MGI:1915054	67804
Rat	sorting nexin 2	RGD:1310291	291464
Dog	sorting nexin 2	VGNC:46629	474657

Species	Name	OMA	EggNOG	Inparanoid
Chimp	sorting nexin 2
Macaque	sorting nexin 2
Mouse	sorting nexin 2
Rat	sorting nexin 2
Dog	sorting nexin 2

Publication Statistics

PubMed Score 24.13

PubMed score by year

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PubTator Score 25.50

PubTator score by year

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Related Publications

Text Mined References (36)

GeneRif Annotations (8)

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PMID	Year	Title