Tbio SNX1 Sorting nexin-1

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:12198132). Acts in part as component of the retromer membrane-deforming SNX-BAR subcomplex. 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:19816406, PubMed:23085988). Involved in retrograde endosome-to-TGN transport of lysosomal enzyme receptors (IGF2R, M6PR and SORT1) and Shiginella dysenteria toxin stxB. Plays a role in targeting ligand-activated EGFR to the lysosomes for degradation after endocytosis from the cell surface and release from the Golgi (PubMed:12198132, PubMed:15498486, PubMed:17550970, PubMed:17101778, PubMed:18088323, PubMed:21040701). Involvement in retromer-independent endocytic trafficking of P2RY1 and lysosomal degradation of protease-activated receptor-1/F2R (PubMed:16407403, PubMed:20070609). 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). Required for endocytosis of DRD5 upon agonist stimulation but not for basal receptor trafficking (PubMed:23152498). This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. This endosomal protein regulates the cell-surface expression of epidermal growth factor receptor. This protein also has a role in sorting protease-activated receptor-1 from early endosomes to lysosomes. This protein may form oligomeric complexes with family members. This gene results in three transcript variants encoding distinct isoforms. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• Q13596
• A6NM19
• A8K6T7
• H0Y2M5
• O60750
• O60751
• Q6ZRJ8

Gene Name

• SNX1

Ensembl ID

• ENST00000261889
• ENSP00000261889
• ENSG00000028528
• ENST00000559844
• ENSP00000453785
• ENST00000561026
• ENSP00000453567

Symbol

• VPS5
• HsT17379

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
disease perturbation	1
kinase perturbation	0.97
interacting protein	0.89
transcription factor perturbation	0.88
transcription factor binding site profile	0.83

Protein Classes

PANTHER Classes

Protein / Membrane Traffic Protein / Membrane Trafficking Regulatory Protein / Sorting Nexin-1

DTO Classes

Protein / Transporter / Membrane Trafficking Regulatory Protein / Sorting Nexin-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: 91.82   (req: < 5)

Gene RIFs: 23   (req: <= 3)

Antibodies: 337   (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: 91.82   (req: >= 5)

Gene RIFs: 23   (req: > 3)

Antibodies: 337   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 15

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 (137)

Explore Interacting Targets

1 – 10 of 137

• See Interactions on String-DB

SNX32

Tdark

Novelty:  0.66136036

p_int:  1

Score:  0.772

Data Source:  BioPlex,STRINGDB

SNX5

Tbio

Novelty:  0.04075649

p_int:  0.999999997

p_ni:  3e-9

Score:  0.996

Data Source:  BioPlex,STRINGDB

SNX6

Tbio

Novelty:  0.05909848

p_int:  0.999999953

p_ni:  4.3e-8

p_wrong:  4e-9

Score:  0.991

Data Source:  BioPlex,STRINGDB

BIN3

Tbio

Novelty:  0.02034119

p_int:  0.999999939

p_ni:  6.1e-8

Score:  0.336

Data Source:  BioPlex,STRINGDB

SNX2

Tbio

Novelty:  0.03880384

p_int:  0.999997789

p_ni:  0.000002211

Score:  0.976

Data Source:  BioPlex,STRINGDB

C1orf87

Tbio

Novelty:  0.03162594

p_int:  0.999995777

p_ni:  0.000004223

Score:  0.538

Data Source:  BioPlex,STRINGDB

KLHL1

Tbio

Novelty:  0.05206893

p_int:  0.999995197

p_ni:  0.000004802

Data Source:  BioPlex

CCDC102B

Tdark

Novelty:  0.28075569

p_int:  0.999761369

p_ni:  0.000238631

Data Source:  BioPlex

HYOU1

Tbio

Novelty:  0.00833649

p_int:  0.999752857

p_ni:  0.000247142

p_wrong:  1e-9

Data Source:  BioPlex

LRRC61

Tdark

Novelty:  1.45343096

p_int:  0.99975081

p_ni:  0.000249189

Data Source:  BioPlex

Nearest Tclin Targets

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

Pathways (4)

KEGG (1)

PathwayCommons (3)

Find Similar Targets

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Data Source	Name	Explore in Pharos	Explore in Source
KEGG	Endocytosis	309 targets	path:hsa04144

Name	Explore in Pharos	Explore in Source
Endocytosis	309 targets	path:hsa04144

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (29)

Functions (9)

Components (14)

Processes (6)

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10

1 – 9 of 9

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
phosphatidylinositol binding	Inferred from Direct Assay (IDA)	UniProtKB
transferrin receptor binding	Inferred from Direct Assay (IDA)	UniProtKB
identical protein binding	Inferred from Physical Interaction (IPI)	IntAct
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

Disease Associations (null)

No disease associations found

GWAS Traits (3)

• Explore on Target Illumination GWAS Analytics (TIGA)

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1 – 3 of 3

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean corpuscular volume	EFO_0004526	1	1	1		64.9
monocyte percentage of leukocytes	EFO_0007989	1	1	1		49.5
apolipoprotein B measurement	EFO_0004615	1	1	1		35

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 3 of 3

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean corpuscular volume	EFO_0004526	1		64.9
monocyte percentage of leukocytes	EFO_0007989	1		49.5
apolipoprotein B measurement	EFO_0004615	1		35

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Acetylation
Alternative splicing
Cell projection
Complete proteome
Endosome
Golgi apparatus
Lipid-binding
Membrane
Phosphoprotein

GWAS Trait Find Similar Targets

No Header	No Header
apolipoprotein B measurement
mean corpuscular volume
monocyte percentage of leukocytes

IDG Resources

No IDG generated resources found

Orthologs (14)

1 – 5 of 14

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	sorting nexin 1	VGNC:1875	453503
Macaque	sorting nexin 1		706544
Mouse	sorting nexin 1	MGI:1928395	56440
Rat	sorting nexin 1	RGD:68935	84471
Dog	sorting nexin 1	VGNC:46619	478336

Species	Name	OMA	EggNOG	Inparanoid
Chimp	sorting nexin 1
Macaque	sorting nexin 1
Mouse	sorting nexin 1
Rat	sorting nexin 1
Dog	sorting nexin 1

Publication Statistics

PubMed Score 91.82

PubMed score by year

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PubTator Score 41.74

PubTator score by year

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Related Publications

Text Mined References (53)

GeneRif Annotations (23)

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PMID	Year	Title