A gold standard set of mechanistically diverse enzyme superfamilies.

by: SD Brown, JA Gerlt, JL Seffernick, PC Babbitt

Genome Biol, Vol. 7, No. 1. (2006)

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Abstract

Superfamily and family analyses provide an effective tool for the functional classification of proteins, but must be automated for use on large datasets. We describe a 'gold standard' set of enzyme superfamilies, clustered according to specific sequence, structure, and functional criteria, for use in the validation of family and superfamily clustering methods. The gold standard set represents four fold classes and differing clustering difficulties, and includes five superfamilies, 91 families, 4,887 sequences and 282 structures.

@article{citeulike:878528, abstract = {Superfamily and family analyses provide an effective tool for the functional classification of proteins, but must be automated for use on large datasets. We describe a 'gold standard' set of enzyme superfamilies, clustered according to specific sequence, structure, and functional criteria, for use in the validation of family and superfamily clustering methods. The gold standard set represents four fold classes and differing clustering difficulties, and includes five superfamilies, 91 families, 4,887 sequences and 282 structures.}, address = {Department of Biopharmaceutical Sciences, University of California, 1700 4th Street, San Francisco, San Francisco, CA 94143-2550, USA.}, author = {Brown, S. D. and Gerlt, J. A. and Seffernick, J. L. and Babbitt, P. C. }, citeulike-article-id = {878528}, doi = {http://dx.doi.org/10.1186/gb-2006-7-1-r8}, issn = {1465-6914}, journal = {Genome Biol}, keywords = {functional-annotation, metabolic-reconstruction}, number = {1}, posted-at = {2008-04-17 00:13:32}, priority = {2}, title = {A gold standard set of mechanistically diverse enzyme superfamilies.}, url = {http://dx.doi.org/10.1186/gb-2006-7-1-r8}, volume = {7}, year = {2006} }

RIS record

TY - JOUR ID - citeulike:878528 L3 - citeulike-article-id:878528 TI - A gold standard set of mechanistically diverse enzyme superfamilies. JF - Genome Biol VL - 7 IS - 1 AD - Department of Biopharmaceutical Sciences, University of California, 1700 4th Street, San Francisco, San Francisco, CA 94143-2550, USA. SN - 1465-6914 N2 - Superfamily and family analyses provide an effective tool for the functional classification of proteins, but must be automated for use on large datasets. We describe a 'gold standard' set of enzyme superfamilies, clustered according to specific sequence, structure, and functional criteria, for use in the validation of family and superfamily clustering methods. The gold standard set represents four fold classes and differing clustering difficulties, and includes five superfamilies, 91 families, 4,887 sequences and 282 structures. KW - functional-annotation KW - metabolic-reconstruction AU - Brown, SD AU - Gerlt, JA AU - Seffernick, JL AU - Babbitt, PC PY - 2006/// UR - http://dx.doi.org/10.1186/gb-2006-7-1-r8 ER -

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