· Delarue web servers
· PDB_Hydro Flow chart
· Modify PDB structures
  · Fix missing side chains
  · Flip HNQ side chains
  · Refine sidechain torsions
  · Single point mutations
  · Change sequence (decorate)
  · Generate missing loops
· Solvate PDB structures
  · Assign charges (PQR)
  · Solvate using GPBL
  · Place Waters
  · All in one
  · Run AquaSol
· References
· Homes/Links
· Job queue status

PDB Fixer

This site provides facilities to mutate and change side-chains of a PDB file automatically.

This will also allow for repairing missing side-chains in a PDB file, constructing polar hydrogen atoms and assigning partial charges for electrostatic calculations.

Warning: This suite of programs does not work well with multimers.
At the moment the only way around this is to decompose the oligomer in single monomers, repair them individually and concatenate the results to re-generate the repaired oligomer...

Choose an option in the menu on the left and use the following flow chart as a guide... Flow chart

  Marc Delarue http://lorentz.dynstr.pasteur.fr
Page last modified 16:48 May 02, 2016.