Related Experiment Video
Updated: Feb 12, 2026

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
Published on: July 25, 2013
De Novo Design of Ligands Using Computational Methods
Venkatesan Suryanarayanan1, Umesh Panwar1, Ishwar Chandra1
1Computer Aided Drug Design and Molecular Modelling Lab, Department of Bioinformatics, Alagappa University, Karaikudi, Tamil Nadu, India.
De novo drug design offers a cost-effective and efficient computational approach for developing novel pharmaceuticals. This method complements virtual screening, accelerating the discovery of drugs with specific desired properties.
Area of Science:
- Computational chemistry
- Medicinal chemistry
- Drug discovery
Background:
- High-throughput virtual screening is a common method for identifying drug candidates.
- De novo design offers an alternative and complementary strategy in drug discovery.
- Developing novel drugs with specific properties requires efficient methodologies.
Purpose of the Study:
- To outline the fundamental concepts of de novo design.
- To explain the computational methods underpinning de novo design.
- To provide an illustrative example of de novo design in practice.
Main Methods:
- Computational approaches for molecular design.
- Principles of de novo design algorithms.
- Case study illustrating de novo design application.
Main Results:
- De novo design enables the creation of novel molecular structures.
- This technique can lead to compounds with desired pharmacological properties.
- The computational approach is both time-efficient and cost-effective.
Conclusions:
- De novo design is a valuable technique in pharmaceutical research.
- It serves as a powerful complement to high-throughput virtual screening.
- This method facilitates the development of novel drugs efficiently and affordably.
Related Concept Videos
Design Example: Traverse Angle Computations
Area Computation by the Alternative Coordinate Method
Ligand Binding Sites
Protein-ligand interactions are quite specific; even though numerous potential ligands surround a cellular protein at any given time, only a particular ligand can bind to that protein. Moreover, a ligand binds only to a dedicated area on the surface of the protein, known as the...
Ligand Binding Sites
Metal-Ligand Bonds
In these complexes, transition metals form coordinate covalent bonds, a kind of Lewis acid-base interaction in which both of the electrons in the bond are contributed by a donor (Lewis base) to an electron acceptor (Lewis acid). The Lewis acid in...
Ligand Binding and Linkage

