CCL: prediction of peptide structures and protein-protein docking

 Sent to CCL by: Marc Baaden [baaden,,smplinux.de]
 Dear Guiyu Zhao,
 You may want to try the Pepfold server:
   http://bioserv.rpbs.univ-paris-diderot.fr/PEP-FOLD/
 The current version should work for peptides up to 36 amino acids.
 Kind regards,
 Marc Baaden
 >>> "Guiyu Zhao guiyu.zhao(0)astrazeneca.com" said:
  >>
  >> Sent to CCL by: "Guiyu  Zhao" [guiyu.zhao{:}astrazeneca.com]
  >> Dear CCL colleagues,
  >>
  >> I'm trying to fulfill a request from my colleagues about a 17-membered
 pept
      ide. They want to get a rough idea about the peptide's 3D structure and, i
      f possible, the binding pose with a cell receptor.
  >>
  >> I feel the task is chellenging for me not only because I'm a modeler
 on sma
      ll molecules and not familiar with protein modeling, but also because we a
      re lack of commercial tools to do peptide structure prediction and protein
      -protein docking. So first of all, is there any free tool to do such calcu
      lations? RosettaDcok and BioLuminate from Schrodinger Inc. are not availab
      le to me. Then, is it reallistic to model a peptide's 3D structure without
       knowing anything about its secondary structure (my colleagues only provid
      ed me its sequence)?
  >>
  >> Thank you in advance for any response.
  >>
  >> Kind regards,
  >> Guiyu Zhao>>
  >>
 Marc Baaden
 --
  Dr. Marc Baaden  - Institut de Biologie Physico-Chimique, Paris
  mailto:baaden---smplinux.de      -      http://www.baaden.ibpc.fr
  FAX: +33 15841 5026  -  Tel: +33 15841 5176  ou  +33 609 843217