Gene3D 11 (Released March 18th 2012)

This release includes updates of Funfams and we will shortly link to views of the alignments and structural representatives.

This release contains 16,297,076 CATH domain assignments for 14,963,305 protein sequences

The Gene3D database is a large collection of CATH protein domain assignments for ENSEMBL genomes and Uniprot sequences More...


Search Options

  • Get proteins by name
  • Get superfamily summary
  • Get protein interactions
  • Genome summary
  • Compare two genomes

Search for proteins using gene names, protein IDs and keywords

Input protein IDs / keywords

Restrict to one or more species using scientific names or taxon IDs

(autocompletes for species from Ensembl or Uniprot genomes)

Search by a protein sequence in any format or multiple sequences in fasta format

Retrieve functional, structural and taxonomic superfamily information

Input superfamily name or code

Search for proteins interactions using gene names, protein IDs and keywords

Input protein IDs / keywords

Restrict to one or more species using scientific names or taxon IDs

(autocompletes for species from Ensembl or Uniprot genomes)

Restrict to interactions between the list of submitted proteins  Clicking this means only interactions between between the query genes will be displayed, ie. if AURKB gene is used as a query and has an interaction with KIF22 in the database but KIF22 isnt in the list of genes searched with, then the KIF22-AURKB interaction wont be displayed.

Restrict to direct physical interactions  Clicking this means only directly physically interacting proteins will be retrieved.

Search by protein sequence in fasta format

CATH superfamily summary for a genome

Input taxon ID, scientific name or common name for an organism

Database for protein sequences

Compare two genomes This tool counts the number of genes with each superfamily from CATH for two organisms and finds those that differ the most (This could be useful for detecting domain famililes involved in pathogenecity for example)

Choose source database Ensembl or Uniprot

Input two organism names or taxon ids ( one in each box) for comparison

Genome 1
Genome 2