| PROTEIN 3D STRUCTURE

Protein tertiary structure

Program name | Description
--- | ---
psiphi | Calculates phi and psi torsion angles from protein coordinates
domainreso | Remove low resolution domains from a DCF file
domainalign | Generate alignments (DAF file) for nodes in a DCF file
domainrep | Reorder DCF file to identify representative structures
seqalign | Extend alignments (DAF file) with sequences (DHF file)
seqfraggle | Removes fragment sequences from DHF files
seqsearch | Generate PSI-BLAST hits (DHF file) from a DAF file
seqsort | Remove ambiguous classified sequences from DHF files
seqwords | Generates DHF files from keyword search of UniProt
libgen | Generate discriminating elements from alignments
matgen3d | Generate a 3D-1D scoring matrix from CCF files
rocon | Generates a hits file from comparing two DHF files
rocplot | Performs ROC analysis on hits files
siggen | Generates a sparse protein signature from an alignment
siggenlig | Generates ligand-binding signatures from a CON file
sigscan | Generates hits (DHF file) from a signature search
sigscanlig | Searches ligand-signature library & writes hits (LHF file)
contacts | Generate intra-chain CON files from CCF files
interface | Generate inter-chain CON files from CCF files