molecular structure
INB-dev:mmb.pcb.ub.es:solvateStructureFromNAMD_MD_Structure

Solvates a Structure (Protein/Nucleic).
$Rev: 20 $
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INB-dev:mmb.pcb.ub.es:optimizeStructureFromNAMD_MD_Structure

Runs an energy minimization of the Structure (Using Namd program).
$Rev: 20 $
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INB-dev:mmb.pcb.ub.es:optimizeStructureFromAMBER_MD_Structure

Runs an energy minimization of the Structure (Using Namd program).
$Rev: 20 $
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INB-dev:mmb.pcb.ub.es:runLeapWithLigandsFromPDBText

Runs Leap program from AmberTools package (from a PDB-Text). Reads Ligand libraries and frcmods from input. Returns an AMBER_MD_Structure (pdb + topology).
$Rev: 20 $
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INB-dev:mmb.pcb.ub.es:optimizeStructureFromGROMACS_MD_Structure

Runs an energy minimization of the Structure (Using Gromacs package).
$Rev: 20 $
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