Interaction between GPCR and Gproteins

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Shilpa Sarkar

Pritam Kumar Panda

thanks. I have sequences of the gpcr and the g protein. I want to find out whether they interact or not

Pankaj Kumar Singh

Hi Shilpa,

You can use GPCR-I-TASSER for modelling your GPCR and and model your G-Protein using ITASSER. You need to create an account using your institutional mail id. Once you have modeled both GPCR and G Protein, try docking them using Cluspro 2.0 ( it is actually quite good for protein-protein docking) , you can also use Patchdock, both of these are server based tools.

The links are:

GPCR -I-TASSER: https://zhanglab.ccmb.med.umich.edu/GPCR-I-TASSER/

ITASSER: https://zhanglab.ccmb.med.umich.edu/I-TASSER/

CLUSPRO2.0: https://cluspro.org/login.php

Patchdock: https://bioinfo3d.cs.tau.ac.il/PatchDock/

Hope this helps.

Best Wishes

Pankaj

Pankaj Kumar Singh thank you for the suggestion. one more query, the GPCR has a Nterminal cleavable signal sequence. Should i model the GPCR with or without the Signal sequence

Shilpa Sarkar I would suggest you to consider the signal sequence as well during the process of modelling.Feel free to contact if you have any query

Cheers