Homology modeling

Homology modeling In discovery Studio

üExperimental structure determination involves difficult methods that require a significant amount of expertise and resources, and can take years to yield results.

ü Protein Modeling on the other hand enables access to sensible structural models within a matter of hours or even minutes.

üTemplate based modeling has been shown to yield useful models in countless publications. As more and more experimental structures become available, the greater the scope template based Protein Modeling will provide researchers with accurate models quickly and efficiently.

üProtein Modeling and Sequence Analysis solutions in Discovery Studio provide the necessary set of tools for the construction of molecular structures, as well as macromolecular docking, in an easy to use customizable graphical user interface suitable for novice and expert users. 

Pre Requirement for Homology Modeling.

ØFirst of all find the protein sequence which you want to make 3D.

ØThis sequence is known as a model sequence.

ØNow find out the template sequence on any database such as a ExPassY.

ØKnow download that template sequence in .PDB format.From Here

ØNow convert model sequence in .PIR format by copy the sequance in on notepad file and save as a .pir format.

ØNow go through below steps here pennicilin binding is our model protein sequance and 1btm.PDB is our known protein.

1. Insert template protein structure

2. Find out the sequence from protein structure

3. Sequence of protein structure

4. Save that sequence as a .bsml formate

5. Open model sequence in new windows.

6. Drag that template sequence on the model sequence.

7. Open template structure.

8. Protocols and job menu view.

9. Menu for additional restrians

10. Click on run to run protocol.

11. Here is your output.