This directory contains binaries and executable scripts including the main minrms program (as well as several small additional programs). Each directory corresponds to a different executable program. To compile these programs, follow the installation instructions. After compilation, each program will be located in its own subdirectory.
Note: These additional programs are probably not useful for most users and can be ignored. These additional programs were used to in the MINRMS paper to assess the quality of the alignment and the similarity of the alignments generated by minrms with sequence alignments generated by other programs. Most users probably do not need to do this.
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minrms Generates sequence alignments that minimize RMSD between matched residues.
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align2msf Converts Gerstein&Levitt's pairwise ALIGN server output to MSF format.
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msf2sequence Extracts a single sequence from one of the sequences aligned in an MSF-file.
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msf2stat3d Computes structural properties of an alignment like RMSD, P_str, and the orientation of minimal RMSD. Generates MIDAS GFX files.
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msf_compare Measures similarity between two alignments.
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pdb2sequence Extracts a sequence of residue 1-letter codes, from a PDB-file.
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rotate_pdb Rotates the structure in a PDB file. The input format is compatible with the data returned by msf2stat3d and minrms.
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pdb_select Generates a PDB file containing a subset of residues from another PDB file.