EMBOSS

UTILS DATABASE CREATION

Database installation

Program name Description

aaindexextract Extract data from AAINDEX

cutgextract Extract data from CUTG

printsextract Extract data from PRINTS

prosextract Build the PROSITE motif database for use by patmatmotifs

rebaseextract Extract data from REBASE

tfextract Extract data from TRANSFAC

cathparse Generates DCF file from raw CATH files

domainnr Removes redundant domains from a DCF file

domainseqs Adds 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 Removes redundancy from DHF files

domainer Generates domain CCF files from protein CCF files

hetparse Converts heterogen group dictionary to EMBL-like format

pdbparse Parses PDB files and writes protein CCF files

pdbplus Add accessibility & 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

Program name	Description
aaindexextract	Extract data from AAINDEX
cutgextract	Extract data from CUTG
printsextract	Extract data from PRINTS
prosextract	Build the PROSITE motif database for use by patmatmotifs
rebaseextract	Extract data from REBASE
tfextract	Extract data from TRANSFAC
cathparse	Generates DCF file from raw CATH files
domainnr	Removes redundant domains from a DCF file
domainseqs	Adds 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	Removes redundancy from DHF files
domainer	Generates domain CCF files from protein CCF files
hetparse	Converts heterogen group dictionary to EMBL-like format
pdbparse	Parses PDB files and writes protein CCF files
pdbplus	Add accessibility & 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