PDBeFold is an interactive service that allows you to identify structures that are similar to that of your reference protein. It is a very powerful structure alignment tool which can perform both pairwise and multiple three-dimensional alignment. In addition, PDBeFold gives you various options to sort the results of your structural alignment query.

When to use PDBeFold

You can use PDBeFold to answer the following questions:

• Are there any structures in the PDB that are similar to mine?
• What SCOP and/or CATH family could my structure belong to?
• Can I get some idea about the possible function of my protein based on structural similarity with others proteins in PDB?
• Can I perform a multiple alignment of many of my structures?

PDBefold structure alignment is based on identification of residues occupying ‘equivalent’ geometrical positions. In other words, unlike sequence alignment, residue type is neglected.