· 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 loops
· Solvate PDB structures
· Assign charges (PQR)
· Solvate using GPBL
· Place Waters
· All in one
· NEW !!! AQUASOL !!!
· Run AquaSol
· Job queue status
Change the entire sequence (and side chains) of a PDB file
The new sequence is specified through an alignment file between the old and new ones. Its format should be MSF (example) as produced by PILEUP by GCG.
There is no loop building facility in this program, therefore there should be
no insertion and no deletion (no gap) in the alignment (MSF) file.
This can also be used to build models of the structure of mutants, or do protein design.
N.B. The progam now has two options: it can either reconfigurate all sidechains
or copy the side chains of those positions that are strictly conserved and
reconfigurate only the non-conserved positions.
See also Patrice Koehl web site.
Input data formats
Page last modified 18:40 August 07, 2006.