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Volume 9, Issue 1, Article R8Wuet al.2008 Open Access Method The SeqFEATURE library of 3D functional site models: comparison to existing methods and applications to protein function annotation * † *‡§ Shirley Wu , Mike P Liang and Russ B Altman Addresses: *Program in Biomedical Informatics, Stanford University, Stanford, CA, 94305 USA. †Google, Inc., Amphitheatre Pkwy, Mountain View, CA, 94043 USA. ‡Department of Genetics, Stanford University, Stanford, CA, 94305 USA. §Department of Bioengineering, Stanford University, Stanford, CA, 94305 USA. Correspondence: Russ B Altman. Email: russ.altman@ Published: 16 January 2008 Received: 1 August 2007 Revised: 21 November 2007 Genome Biology 2008, 9:R8 (doi:10.1186/gb-2008-9-1-r8) Accepted: 16 January 2008 The electronic version of this article is the complete one and can be found online at /content/9/1/R8 © 2008 Wu et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. sentation. The tool shows significantly improved performance overSeqFEATURE: protein function annotation toolpSeqFEATURE, a tool for protein function annotation, models protein functions described by sequence motifs using a structural other methods when sequence and structural similarity are low. /p repre- Abstract Structural genomics efforts have led to increasing numbers