[gmx-users] any software which could convert a polypeptide sequence to a pdb file?

[Mark Abraham]

On 4/20/2011 2:36 PM, Liao Chuan wrote:
>
> Dear gmx-users,
>
> I want to conduct simulations of a protein and its ligand, a 
> heptapeptide HXXXPAS, where X could be tyrosine, tryptophan, pheny 
> alanine, alanine. Thus, I will have to conduct a total number of 
> 4*4*4=64 runs. I've got the pdb file of the protein, but I have no 
> idea how to prepare the pdb files of those 64 heptapeptides with 
> sequences already known. Is there any software/script which could 
> convert a polypeptide sequence to a pdb file?  Any comment is appreciated!
>

Leap in the AmberTools package is good for this.

Mark



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