Homology modeling, also known as comparative modeling of protein, refers to constructing an atomic-resolution model of the "target" protein from its amino acid sequence and an experimental three-dimensional structure of a related homologous protein (the "template")
hi, Raphael Onuku ,
The basic difference between the Swiss model and Modeller : swiss model is web based application hosted on somewhere on server, the modeller is command line tool which you have to install on your system. Swiss modeller has its own way of functioning whereas you can change parameters in modeller according to your need. Chimera tool provides graphical user interface for modeller and widely used for modelling. While running modeller its provide you to see and control each step of modelling and have better confidence over swiss model.
Regards
My experience tells me that Swiss Model is better as per the results.
It is very easy to use from the website too.
If you are a beginner and for low complex modeling, go with the Swiss model.
If you are a bit advanced, you try modeller, it has loop refining, multiple target modeling, etc.
You can use GUI based modeller using chimera or easymodeller
http://modellergui.blogspot.com/2012/07/easymodeller-40-new-gui-to-modeller.html
https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/modeller.html
I prefer SWISS-MODEL because it is more convenient and intuitive to operate.
You could use PyRosetta via Python if you need extensive functionalities.
my understanding is MODELLER applies "satisfaction of spatial restraint techniques" to generate the model coordinates whereas SWISS-MODEL applies HMM which produces more accurate models (structure evaluation using MolProbity confirmed this when tested on a sample). I'm happy to be corrected
- Badges
- Science topic
- Similar topics
- Psychology
- Mental Processes
- Learning