EMBOSS

| PROTEIN DOMAINS

Protein domain analysis

Program name | Description
--- | ---
helixturnhelix | Identify nucleic acid-binding motifs in protein sequences
pepcoil | Predict coiled coil regions in protein sequences
cathparse | Generate DCF file from raw CATH files
domainnr | Remove redundant domains from a DCF file
domainseqs | Add sequence records to a DCF file
domainsse | Add secondary structure records to a DCF file
scopparse | Generate DCF file from raw SCOP files
ssematch | Search a DCF file for secondary structure matches
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 | Remove fragment sequences from DHF files
seqsort | Remove ambiguous classified sequences from DHF files
seqwords | Generate DHF files from keyword search of UniProt
libgen | Generate discriminating elements from alignments
matgen3d | Generate a 3D-1D scoring matrix from CCF files
rocon | Generate a hits file from comparing two DHF files
rocplot | Perform ROC analysis on hits files