MONSTER is described in
Nucleic Acids Research paper.
are available, to give:
Examples of what MONSTER can do
Ideas of what to do with Monster
Validation of results returned by Monster (subject to availability of sufficient information in the papers)
MONSTER will currently only run on the standard residues as listed by the PDB
FAQs can be found
A list of known bugs can be found
MONSTER is an amalgamation of the following publicly available software:
Vriend, G (1990) WHAT IF: A molecular modeling and drug design program.
J. Mol. Graph.
WHAT IF is run using a STARTUP.FIL file that feeds it a list of commands. The template STARTUP.FIL generated can be seen
Sanner, M.F., Olson, A.J. and Spehner, J.C. (1996) Reduced surface: an efficient way to compute molecular surfaces.
MSMS is run in three stages:
The PDB is converted to a simple *.xyzr format for MSMS input.
MSMS itself is run with the following options: -density 19 -probe_radius 1.4
Finally a script parses the MSMS output vertices file, and adds up the contact surface area for every atom, residue and chain.
McDonald, I.K. and Thornton, J.M. (1994) Satisfying hydrogen bonding potential in proteins.
J. Mol. Biol.
HBplus is run with a host of options, all stored in an options file seen