Table 3.

URLs and other resources associated with the CDD project

URL	Description
https://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi	CD-Search interface utilizing the RPS-BLAST algorithm and the model database, and to the CDART database of pre-computed domain annotation
https://www.ncbi.nlm.nih.gov/Structure/bwrpsb/bwrpsb.cgi	BATCH CD-Search interface utilizing the RPS-BLAST algorithm and the model database, and to the CDART database of pre-computed domain annotation. Up to 1000 protein queries may be submitted per request, and the size of queries is restricted to no more than 40 000 residues.
https://www.ncbi.nlm.nih.gov/cdd	Entrez search interface to CDD
https://ftp.ncbi.nih.gov/pub/mmdb/cdd	CDD FTP site, see README file for content
https://ftp.ncbi.nlm.nih.gov/toolbox executables can be obtained from: https://www.ncbi.nlm.nih.gov/BLAST/download.shtml	RPS-BLAST stand-alone tool for searching databases of profile models, part of the NCBI toolkit distribution
https://www.ncbi.nlm.nih.gov/protfam	Entrez interface to the Protein Families collection, which includes SPARCLE domain architectures
https://ftp.ncbi.nlm.nih.gov/pub/mmdb/cdd/rpsbproc	Standalone utility for enriching and formatting RPS-BLAST results
https://ftp.ncbi.nlm.nih.gov/pub/mmdb/cdd/SparcleLabel/	Standalone utility for naming/labeling proteins using SPARCLE