annotate your gene with gene superfamily and GO

Three tools you need to take their advantages:
1. BioMart, this is just a interface for many databases
http://www.biomart.org/index.html

2. InterPro, is an integrated database of predictive protein "signatures" used for the classification and automatic annotation of proteins and genomes. InterPro classifies sequences at superfamily, family and subfamily levels, predicting the occurrence of functional domains, repeats and important sites. InterPro adds in-depth annotation, including GO terms, to the protein signatures.

http://www.ebi.ac.uk/interpro/

the publication for InterPro
http://database.oxfordjournals.org/content/2011/bar033.full

all the gene superfamily list
http://www.ebi.ac.uk/interpro/ISearch?mode=db&query=Y

3.

SUPERFAMILY is a database of structural and functional annotation for all proteins and genomes.

The SUPERFAMILY annotation is based on a collection of hidden Markov models, which represent structural protein domains at the SCOP superfamily level. A superfamily groups together domains which have an evolutionary relationship. The annotation is produced by scanning protein sequences from over 1,700 completely sequenced genomes against the hidden Markov models.

http://www.supfam.org/SUPERFAMILY/index.html