ModelMaker Commands

In VMD's TkConsole, type modelmaker to see a list of commands. You can also type modelmaker command where 'command' is one of the available ModelMaker commands to see more information about it.

Usage: modelmaker [args...]
Commands:
gapfind -- find gaps in structure
full_length_model -- generate a complete template model
abinitio -- run Rosetta abinitio structure prediction
insertion -- run Rosetta structure prediction for insertion folding
analyze -- analyze results of Rosetta abinitio structure prediction
refine -- refine a structure with Rosetta using a density
pdb2seq -- get the single-letter amino acid sequence
seqsub -- extract subrange of fasta sequence
makepsf -- make a .psf file from a pdb
mdff -- run an MDFF simulation
cccolor -- calculate local cross correlations
ssanalysis -- analyze the secondary structure of the generated structures
get_empty_density -- find the unassigned empty density around a structure
model -- generate a homology model with MODELLER