Dear Umesh Panvar.,

You just design it in MODELLER and then you see the image form of theoretically.

Then you  manually join the N-Terminal and C-Terminal by using modeling software.

And possible to make cyclic peptide by using side chain linkage also.

You have 10residue peptide know. just you design it by yourself by assigning possible structure and then you go for cyclization . and the Modeling software also have pre design option to see possible template know.

And by seeing sequence you can predict possible cyclic structure.,

Good Luck & Regards

R.Selva.....

Dear Umesh,

If you know the sequence of this linear peptide, you can model a cyclic version in MODELLER. It has special script for cyclic peptides/proteins modeling.

Look this for details:

http://salilab.org/modeller/wiki/Cyclic%20protein

Or you can manually join the N- and C-ends of peptides manually in protein modeling software.

Dear Sir,

Thank you for your suggestion. But. One more thing is that, I have peptide with length of 10 residue and in the given script for building cyclic peptide, they have used template. But, how should I choose the template or Is it possible that may we disable the template selection ?  

Dear Umesh Panvar.,

You just design it in MODELLER and then you see the image form of theoretically.

Then you  manually join the N-Terminal and C-Terminal by using modeling software.

And possible to make cyclic peptide by using side chain linkage also.

You have 10residue peptide know. just you design it by yourself by assigning possible structure and then you go for cyclization . and the Modeling software also have pre design option to see possible template know.

And by seeing sequence you can predict possible cyclic structure.,

Good Luck & Regards

R.Selva.....

Dear Sir,

What kind of modeling software may I use for joining the N-Terminal and C-Terminal ? Or Is it possible to make the bond between N and C - Terminal residues using pyMol Software?