Protein Domains
CDD
http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml
DBGET search - Pfam
http://www.genome.ad.jp/dbget-bin/www_bfind?pfam
DBGET search - PROSITE
http://www.genome.ad.jp/dbget-bin/www_bfind?prosite
DOUTfinder
http://mendel.imp.ac.at/dout/
ExPASy - PROSITE
http://ca.expasy.org/prosite/
FISH Sequence VS. saHMM
http://babel.ucmp.umu.se/fish/
GenomeNet - Other Tools
http://www.genome.ad.jp/en/gn_kubic.html
interpro
http://www.ebi.ac.uk/interpro/
JustBio - PatSearch
http://www.justbio.com/index.php?page=patsearch
NCBI Conserved Domain Search
http://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi
NCBI Structure - MMDB page
https://www.ncbi.nlm.nih.gov/Structure/MMDB/mmdb.shtml
PDB
http://www.rcsb.org/pdb/home/home.do
ScanProsite
http://www.expasy.org/tools/scanprosite/
smart
http://smart.embl-heidelberg.de/
superfamily
http://supfam.org/SUPERFAMILY/cgi-bin/scop.cgi?ipid=SSF51206
uniprot
http://www.uniprot.org/tissues/37
wwpdb
http://www.wwpdb.org/