SynSysNet - Synaptic Proteins Database



SynSysNet


Here, we present SynSysNet, which is based on an expert-curated list of 1.000 human genes, specific to the synapse. Information on resulting proteins, their 3D structure, binding small molecules Protein-Protein-Interactions (PPIs) and Compound-Protein-Interactions are integrated.
Proteins or Compounds can be searched at the appropriate buttons and Interactive Networks can be visualized. The point Diseases present neurological diseases, to illustrate the role of SynSysNet in the medication.

If you have any questions please feel free to contact us!

Database statistics

Genes1028
Proteins6114
PDB-structures2777
Models601
Compounds46028
Protein-Drug-Interactions69063
Protein-Protein-Interactions4638
Pathways185

Interactions

Cobweb NetworkP

What is visualized in these networks?

In these networks, synaptic interactions including drugs and proteins are displayed. Pathway information is acquired from KEGG via webservice and drug-target information is shown on top. The original HIPPIE score is integrated to indicate the confidence of interactions. Thick edges correspond to high confidence.

How can I use Cobweb?

Before you can create an "Interactive Network" you have to know the IDs of the Protein (UniProt ID) or the Drug (PubChem CID) you are interested in.
To find out the IDs go to "Search Gene/Proteine" or "Compounds". Once you have the IDs you can type in them either in the corresponding field. If you like to show more than one Protein or Drug in your Interactiv Network you can easily type in all of them just devided by a semicolon.

Compound-PPI Network

Compound-PPI Network


This compound-protein-protein interaction network shows the interactions of 1.160 compounds and 894 proteins. To create the network compounds from the database SuperTarget and connected proteins from SynSysNet were chosen. A total of 6.116 interactions (edges), thereof 4.318 PPIs and 1.798 compound-protein interactions are shown. The compound-representing circles are ruby-colored, the proteins' green and the edges between them blue.
The clusters with the same same targets were analysed and it was found that many of the compounds of one cluster belong to the same ATC-code. Those clusters were highlighted and marked with the appropiate ATC-code.

Protein of the Week:
Peripheral plasma membrane protein CASK

Uniprot-ID: O14936

detailed viewdownload .pdb.gz
Description
Peripheral plasma membrane protein CASK - also named Calcium/calmodulin-dependent serine protein kinase (CASK) - belongs to a family of membrane-associated guanylate kinase proteins. A mutation of this protein leads to different malformation or mental retardation e.g. pontocerebellar hypoplasia.
Many studies have revealed that CASK is crucial for the synapse formation and is involved in the regulation of gene expression. In mice a mutation of CASK leads to neonatal lethality.
To conclude, it seems to be an important protein for the development of brain. Structurally CASK contains various protein-protein interaction domains and possesses several binding partners.

Pathway of the Dopaminergic Synapse


Pathway of the Dopaminergic Synapse
This is the KEGG pathway map of a dopaminergic synapse. The compound-target relations of SynSysNet are transfered into a cellular context. To get additional information about the targeting compounds place the mouse pointer on a synapse-specific target. In this example the D(2)-dopamine receptor target is highlighed in blue. For Parkinsons disease therapy the function of the D(2)-dopamine receptor should be enhanced by the usage of agonists (for example cabergoline or rasagiline). In other diseases, such as Schizophrenia, we want to block D(2)-dopamine receptors with antipsychotics (for example risperidonum or flurophenazine). This leads to a decreased activity of the dopaminergic system.