Database installation

Program nameDescription
aaindexextract Extract amino acid property data from AAINDEX
cutgextract Extract codon usage tables from CUTG database
jaspextract Extract data from JASPAR
printsextract Extract data from PRINTS database for use by pscan
prosextract Process the PROSITE motif database for use by patmatmotifs
rebaseextract Process the REBASE database for use by restriction enzyme applications
tfextract Process TRANSFAC transcription factor database for use by tfscan
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
allversusall Sequence similarity data from all-versus-all comparison
seqnr Remove redundancy from DHF files
domainer Generate domain CCF files from protein CCF files
hetparse Convert heterogen group dictionary to EMBL-like format
pdbparse Parse PDB files and writes protein CCF files
pdbplus Add accessibility and secondary structure to a CCF file
pdbtosp Convert swissprot:PDB codes file to EMBL-like format
sites Generate residue-ligand CON files from CCF files