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Provides Gene Ontology (GO) annotations for query protein sequences based on the functional classification of the domain-based CATH-Gene3D resource. FunFHMMer also provides valuable information for the prediction of functional sites. The FunFHMMer web server can be queried using a protein sequence in the FASTA format or by entering UniProt/GenBank sequence identifiers as input in the text area on the webpage.

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FunFHMMer classification

FunFHMMer specifications

Web user interface
Input data:
Protein sequence in FASTA format or UniProt/GenBank sequence identifiers
Computer skills:
Restrictions to use:
Output data:
The output of the web server provides the multidomain architecture of the query sequence along with CATH domain superfamily and FunFam assignments for each domain identified within the query sequence.

FunFHMMer distribution


FunFHMMer support


  • Sayoni Das <>


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Institute of Structural and Molecular Biology, UCL, Darwin Building, Gower Street, UK

Funding source(s)

UCL Overseas Research Scholarship; Biotechnology and Biological Sciences Research Council (BBSRC) [BB/K020013/1]; the Wellcome Trust [081989/Z/07/Z]; EU

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