Question

please give me some examples of Homology modelling and comparative
docking analysis of two protien ?

Answer 1

With respect to homology modelling...

The problem: you have sequenced or have been given the sequence of a protein. These are relatively cheap, easy and painless to come by: if your lab doesn't have sequencing capabilities, you put your sample in the mail together with a cheque made out to someone who does and in due time they send you the sequence.

Now you want to know what structure the protein has. This is hard. Inability to tell about protein structure straight from protein sequence is called the protein folding problem - solve it and get a Nobel. Seriously. At this point, you can go through the whole protein structure determination pipeline: crystalise it, shine x rays through it, get intensities and play around with fitting your sequence into the electron density map; or use NMR and get restraints.

Or you can sort of get around it by using homology modelling. Basically, you get a slew of similar proteins (often the same protein from multiple organisms, or a similar family of proteins from the same organism). Sequences and structures for these proteins are known. By comparing your sequence with the sequences of the structurally solved proteins, you can infer the likely structure (or structures) of your own protein.

Does that answer your question or are you interested in specific studies and specific examples?

Answer 2

thanks :) ............. can u give me some specific examples and any link if possible ??

Answer 3

@blues ??