Protein family annotation in a multiple alignment viewer
Bioinformatics. 2003 Mar 1; 19 (4):544-5.

Jason M. Johnson¹,^*,^†, Keith Mason², Ciamac Moallemi²¹, Shyamal Somaroo¹ and Enoch S. Huang¹,<sup>*

1</sup>Pfizer Discovery Technology Center, 620 Memorial Drive, Cambridge, MA 02139, USA and ²Neogenesis Drug Discovery, 840 Memorial Drive, Cambridge, MA 02139, USA

^* To whom correspondence should be addressed.

^†Present address: Rosetta Inpharmatics, 12040 115th Avenue NE, Kirkland, WA 98034, USA.

Summary: The Pfaat protein family alignment annotation tool is a Java-based multiple sequence alignment editor and viewer designed for protein family analysis. The application merges display features such as dendrograms, secondary and tertiary protein structure with SRS retrieval, subgroup comparison, and extensive user-annotation capabilities.