Tbio SDC2 Syndecan-2

Protein Summary

Description

Cell surface proteoglycan that bears heparan sulfate. Regulates dendritic arbor morphogenesis (By similarity). The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan and is a member of the syndecan proteoglycan family. The syndecans mediate cell binding, cell signaling, and cytoskeletal organization and syndecan receptors are required for internalization of the HIV-1 tat protein. The syndecan-2 protein functions as an integral membrane protein and participates in cell proliferation, cell migration and cell-matrix interactions via its receptor for extracellular matrix proteins. Altered syndecan-2 expression has been detected in several different tumor types. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• P34741
• B3KQA3
• Q6PIS6
• Q9H6V1
• SYND2

Gene Name

• SDC2

Ensembl ID

• ENST00000302190
• ENSP00000307046
• ENSG00000169439

Symbol

• HSPG1
• HSPG
• CD362
• HSPG1
• SYND2

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
transcription factor perturbation	0.99
small molecule perturbation	0.92
microRNA	0.84
disease	0.81
PubMedID	0.81

Protein Classes

PANTHER Classes

Protein / Signaling Molecule / Membrane-bound Signaling Molecule / Syndecan-2

Protein / Extracellular Matrix Protein / Extracellular Matrix Glycoprotein / Syndecan-2

Protein / Defense/immunity Protein / Syndecan-2

Protein / Cytoskeletal Protein / Syndecan-2

Protein / Cell Adhesion Molecule / Syndecan-2

DTO Classes

Protein / Extracellular Structure / Extracellular Matrix Glycoprotein / Syndecan-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: 196.59   (req: < 5)

Gene RIFs: 70   (req: <= 3)

Antibodies: 267   (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: 196.59   (req: >= 5)

Gene RIFs: 70   (req: > 3)

Antibodies: 267   (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

Find Targets by 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 (305)

Explore Interacting Targets

1 – 10 of 305

• See Interactions on String-DB

DHRS2

Tbio

Family:  Enzyme

Novelty:  0.002032

p_int:  0.999999758

p_ni:  2.38e-7

p_wrong:  3e-9

Data Source:  BioPlex

GPR183

Tchem

Family:  GPCR

Novelty:  0.02005679

p_int:  0.999999681

p_ni:  3.18e-7

p_wrong:  1e-9

Data Source:  BioPlex

FGF2

Tchem

Novelty:  0.00007856

p_int:  0.999999424

p_ni:  5.61e-7

p_wrong:  1.5e-8

Score:  0.974

Data Source:  BioPlex,STRINGDB

PDPK1

Tchem

Family:  Kinase

Novelty:  0.00430458

p_int:  0.999997992

p_ni:  0.000002008

Data Source:  BioPlex

GMEB1

Tbio

Family:  TF

Novelty:  0.10522678

p_int:  0.999994638

p_ni:  0.000005362

Score:  0.306

Data Source:  BioPlex,STRINGDB

PRDM10

Tbio

Family:  TF; Epigenetic

Novelty:  0.03463517

p_int:  0.999985181

p_ni:  0.000014819

Data Source:  BioPlex

GMEB2

Tdark

Family:  TF

Novelty:  0.1945427

p_int:  0.999984244

p_ni:  0.000015237

p_wrong:  5.19e-7

Score:  0.306

Data Source:  BioPlex,STRINGDB

CAMKV

Tbio

Family:  Kinase

Novelty:  0.17794181

p_int:  0.999968009

p_ni:  0.000031991

Data Source:  BioPlex

SNX33

Tbio

Novelty:  0.11762505

p_int:  0.999952833

p_ni:  0.000046983

p_wrong:  1.84e-7

Score:  0.162

Data Source:  BioPlex,STRINGDB

SULF1

Tbio

Family:  Enzyme

Novelty:  0.00992209

p_int:  0.999944592

p_ni:  0.000055169

p_wrong:  2.39e-7

Score:  0.439

Data Source:  BioPlex,STRINGDB

Nearest Tclin Targets

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

Pathways (90)

Reactome (37)

KEGG (4)

PathwayCommons (14)

WikiPathways (35)

A tetrasaccharide linker sequence is required for GAG synthesis (R-HSA-1971475)

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Find Similar Targets

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5

1 – 5 of 37

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	A tetrasaccharide linker sequence is required for GAG synthesis	26 targets	R-HSA-1971475
Reactome	Axon guidance	533 targets	R-HSA-422475
Reactome	Cell surface interactions at the vascular wall	211 targets	R-HSA-202733
Reactome	Chondroitin sulfate/dermatan sulfate metabolism	50 targets	R-HSA-1793185
Reactome	Defective B3GALT6 causes EDSP2 and SEMDJL1	20 targets	R-HSA-4420332

Name	Explore in Pharos	Explore in Source
A tetrasaccharide linker sequence is required for GAG synthesis	26 targets	R-HSA-1971475
Axon guidance	533 targets	R-HSA-422475
Cell surface interactions at the vascular wall	211 targets	R-HSA-202733
Chondroitin sulfate/dermatan sulfate metabolism	50 targets	R-HSA-1793185
Defective B3GALT6 causes EDSP2 and SEMDJL1	20 targets	R-HSA-4420332

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (18)

Functions (2)

Components (7)

Processes (9)

Find Similar Targets

Items per page:

10

1 – 2 of 2

GO Term	Evidence	Assigned by
identical protein binding	Inferred from Physical Interaction (IPI)	IntAct
PDZ domain binding	Inferred from Physical Interaction (IPI)	BHF-UCL

Disease Associations (null)

No disease associations found

GWAS Traits (1)

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5

1 – 1 of 1

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mathematical ability	EFO_0004875	1	1	1		63.4

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 1 of 1

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mathematical ability	EFO_0004875	1		63.4

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
Complete proteome
Differentiation
Glycoprotein
Heparan sulfate
Membrane
Neurogenesis
Phosphoprotein
Polymorphism
Proteoglycan
Reference proteome

GWAS Trait Find Similar Targets

No Header	No Header
mathematical ability

MGI Phenotype Find Similar Targets

No Header	No Header
hematopoietic system phenotype
homeostasis/metabolism phenotype
integument phenotype
pigmentation phenotype
vision/eye phenotype

IDG Resources

No IDG generated resources found

Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	syndecan 2	VGNC:801	464297
Macaque	syndecan 2		703841
Mouse	syndecan 2	MGI:1349165	15529
Rat	syndecan 2	RGD:3649	25615
Dog	syndecan 2	VGNC:54120	477945

Species	Name	OMA	EggNOG	Inparanoid
Chimp	syndecan 2
Macaque	syndecan 2
Mouse	syndecan 2
Rat	syndecan 2
Dog	syndecan 2

Publication Statistics

PubMed Score 196.59

PubMed score by year

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PubTator Score 342.18

PubTator score by year

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Related Publications

Text Mined References (120)

GeneRif Annotations (70)

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10

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PMID	Year	Title