List of Modules

Subsets of domain specific data in NetPro is accessible in comprehensive modules: small molecule/compound module, Cytochrome P450 module, Ubiquitin proteasome module, Protease module, Kinase module, Transcription factor module, Channel proteins module, Phosphatase module, Pathogenic interactions module.

1. Drug Module
2. CYP Module
3. Ubiquitin Module
4. Protease Module
5. Kinase Module
6. Transcription Module
7. Channel Protein Module
8. Phosphatase Module
9. Pathogenic Interaction Module(Virus and Bacteria)

Drug Module :
Small molecule/compound module NetPro™ compound database contains a subset of NetPro™ interactions on small molecules with bio entities- proteins, RNA, DNA and other small molecules reported in literature. The design and depth of information in these datasets are valuable tools for deriving at hypothesis on small molecule efficacy, metabolism, pharmacological effects, etc.

Interoperability enabled by

      Structures of small molecules
      Public identifiers like CasID, Chebi ID

Synopsis of content

      A wide class of small molecules like drugs, ligands, agonists, antagonists, inhibitors, modulators included
      High proportion of pharmacologically relevant novel small molecules and their therapeutic targets like GPCRs,
       kinases, proteases etc.
     Downstream and Upstream pharmacological effects
     Small molecule-CYP interactions
     CYP mediated Drug synergism and drug interference
     Specific metabolic event between CYPs and drug/small molecule
     Disease associations
     Kinetic values like Km, Ki, metabolic rate constants, clearance rates, dose-response studies including SAR values
            And more...

Upcoming feature

      Target protein mapping to hierarchical class of proteins compliant with OBO foundry and Protégé OWL guidelines
      Small molecule mapping to function and role terms as in Chebi
      Plug-in of both protein and small molecule ontologies for semantic query

CYP Module :

NetPro™ CYP450 Module contains interactions pertaining to Cytochrome P450 (CYP450) group of enzymes curated from literature. CYP450 are the phase I enzymes involved in drug metabolism. This is a reference tool to understand and predict drug-drug interactions and small molecule metabolism mediated by CYPs.

Synopsis of content

      Inducers, inhibitors, activators and substrates of CYPs
      Specific metabolic event between CYPs and drugs or other small molecule
      CYP mediated Drug synergism and drug interference
     Interactions of CYPs in metabolic reactions related to biomolecules like steroids
     Kinetics of CYP-small molecule interaction
  

Added feature

     Structures of small molecules involved in CYP interaction
 
           And more...

 

 

Ubiquitin Module :

NetPro™ UbPr module contains interactions of proteins involved in ubiquitin proteasome pathway, a pathway that plays a key role in various processes like cell cycle, transcription, signal transduction, immune response, etc. It is also an important pathway implicated in various pathological conditions like malignancy, neurodegenerative disorders and inflammatory diseases. E3 ligase-substrate are being targeted for therapeutic purposes. The datasets in the module are valuable tools for identifying potential E3 ligases and identifying new pathways involved in stabilizing or degrading proteins of interest.

Synopsis of content

      Ubiquitin ligase- substrate interactions
      Experiments with Small molecule proteasome Inhibitors
      Deubiquitinating enzymes and their targets
      Interactions 2 nodes upstream of ubiquitin ligases
      Disease association of the proteins
      Kinetic values like Km, Ki, Kd, etc.
            And more...

Protease Module :

NetPro™ protease module contains bi molecular interaction datasets where one of the participant is a protease. Proteases are target class for various diseases like cancer, neurodegenerative disorders, inflammatory disorders and cardiovascular diseases.

Synopsis of content

      Protease substrates and result of protease action
      Regulators of protease expression, activity
      Small molecule Inhibitors of proteases
      Regulators of enzyme activity, experimental details of interaction
      Diseases association of the protease and its activity
      Kinetic values like Ki, Km, inducer concentration
  
            And more...

 

Kinase Module :

Kinases are a key class of regulatory proteins that promote Phosphorylation, an important process that mediates signal transduction. These enzymes are target class for various diseases like cancer, diabetes, cardiovascular disease and inflammatory disorders. NetPro™ kinase module contains interactions pertaining to kinases, details of the interactions like their regulation, experimental methods, location of the interaction, pathway cross talks, domain and residues involved, etc.

Synopsis of content

      Kinase substrates
      Information on region domain/residue being involved
      Small molecule Inhibitors of proteases
      Diseases association
      Small molecule inhibitors of the kinases
      Interactions supported by experimental methods, location of the interaction, interaction result
      Kinetics values including reaction rate constants, ki, km etc.
  
            And more...

Transcription Module :

NetPro™ Transcription factor module contains interactions where one of the participant is a kinase. Transcription factors (TFs) are known to have a critical role in the pathogenesis of numerous diseases including cancer, diabetes, autoimmune diseases, inflammatory diseases etc.

Synopsis of content

      Direct targets
      Information on region domain/residue/elements being involved
      Synergism between TFs in regulating gene transcription
      Regulation by co-activator or co-represso
      Upstream molecules modulating activity/expression of the TFs
      Diseases association of the kinase
      Small molecule inhibitors of the kinase
      Interactions supported by experimental methods, location of the interaction, interaction result
      Kinetics values

  
            And more...

 

Channel Protein Module :

NetPro™ channel protein module contains interactions between the molecules involved in the transport of ions or small molecules and the molecules being transported. Abnormalities of channels contribute to many diseases including degenerative diseases/nervous system related diseases. These molecules also play a vital role in drug resistance.

Synopsis of content

      Ion channels, lipid transporters, drug transporters, neurotransmitter transporters, Amino acid transporters,
       co-factor transporters
      Diseases association
      Interactions supported by experimental methods, location of the interaction, interaction result
      Small molecule inhibitors
      Kinetics values

            And more...

Phosphatase Module :

NetPro™ phosphatase module contains interactions where one of the participant is a protein phosphatse. Protein dephosphorylation is a key process involved in cell signalling, and therefore phosphatases are implicated in diseases such as cancer and diabetes.

Synopsis of content

      Phosphatase substrates
      Information on region domain/residue being involved
      Molecules modulating the activity or expression of the phosphatases
      Diseases association of phosphatase
      Small molecule inhibitors
      Interactions supported by experimental methods, location of the interaction, interaction result
      Kinetics values including reaction rate constants, ki, km etc.

            And more...

 

Pathogenic Interaction Module (Virus and Bacteria) :

NetPro™ host-pathogen molecular interaction module is a subset of dataset from NetPro™ which compiles pathogenic proteins or other pathogenic non-protein components involved in pathogen-host interactions. This may prove as an invaluable resource in the discovery of genes in medically relevant pathogens, which may be potential targets for therapeutic intervention.

Synopsis of content

      Pathogenic species covered - HIV, Hepatitis, Herpes simplex, Human papilloma virus, Staphylococcus, Neisseria,
       Clostridium, etc.
      Diseases association
      Interactions supported by experimental methods, location of the interaction, interaction result
      Small molecule inhibitors
      Kinetics values

            And more...