<!--#include virtual="/unknown_orfs/tmpl/header.html"--> <CENTER> <DIV CLASS="search_header" STYLE="WIDTH:700;"><CENTER> <B>WELCOME</B> </CENTER></DIV> <DIV CLASS="search" STYLE="WIDTH:700;" ALIGN="left"> <P STYLE="font-size:12pt;" ALIGN="center"><B>Assigning Function to Yeast Proteins by Integration of Technologies</B></P> <P STYLE="font-size:8pt;" ALIGN="center"><A HREF="http://www.molecule.org/content/article/abstract?uid=PIIS1097276503004763" TARGET="mol_cell"><I>Molecular Cell</I>, Vol 12, 1353-1365, December 2003</A></P> <P STYLE="font-size:8pt;" ALIGN="center">Tony R. Hazbun<SUP>1,2</SUP>, Lars Malmström<SUP>3</SUP>, Scott Anderson<SUP>4</SUP>, Beth J. Graczyk<SUP>3</SUP>, Bethany Fox<SUP>3</SUP>, Michael Riffle<SUP>3</SUP>, Bryan A. Sundin<SUP>3</SUP>, J. Derringer Aranda<SUP>2</SUP>, W. Hayes McDonald<SUP>4</SUP>, Chui-hwei Chun<SUP>3</SUP>, Brian E. Snydsman<SUP>3</SUP>, Phillip Bradley<SUP>3</SUP>, Eric G. D. Muller<SUP>3</SUP>, Stanley Fields<SUP>1,2</SUP>, David Baker<SUP>1,3</SUP>, John R. Yates III<SUP>4</SUP> and Trisha N. Davis<SUP>3*</SUP></P> <P STYLE="font-size:8pt;" ALIGN="center"><SUP>1</SUP>Howard Hughes Medical Institute, <SUP>2</SUP>Departments of Genome Sciences and Medicine, <SUP>3</SUP>Department of Biochemistry, University of Washington, Seattle, WA, <SUP>4</SUP>Department of Cell Biology, Scripps Research Institute, La Jolla, CA</P> <P STYLE="font-size:10pt;" ALIGN="left"><B>Abstract:</B></P> <P STYLE="font-size:10pt;" ALIGN="left">Interpreting genome sequences requires the functional analysis of thousands of predicted proteins, many of which are uncharacterized and without obvious homologues. To assess whether the roles of large sets of uncharacterized genes can be assigned by targeted application of a suite of technologies, we used four complementary protein-based methods to analyze a set of 100 uncharacterized but essential open reading frames (ORFs) of the yeast <I>Saccharomyces cerevisiae</I>. These proteins were subjected to affinity purification and mass spectrometry analysis to identify co-purifying proteins; two-hybrid analysis to identify interacting proteins; fluorescence microscopy to localize the proteins; and structure prediction methodology to predict structural domains or identify remote homologies. Integration of the data assigned function to 48 ORFs using at least two of the Gene Ontology (GO) categories of biological process, molecular function, and cellular component; 77 ORFs were annotated by at least one method. This combination of technologies, coupled with annotation using GO, is a powerful approach to classify genes. <P STYLE="font-size:10pt;" ALIGN="left"><B>How To Use This Site:</B> <P STYLE="font-size:10pt;" ALIGN="left">This site provides the ability to search for all of the data we found for a particular ORF or gene. To search, simply type in the name of the ORF or gene in the search box near the top of every page. This search is not limited to the 100 essential uncharacterized ORFs we studied. You are able to view and download all of our mass spectrometry, fluorescence microscopy, yeast two-hybrid and protein structure prediction data for any ORF for which we have experimental data. <P STYLE="font-size:10pt;" ALIGN="left">In addition, we provide three tables to summarize our findings for the 100 essential uncharacterized ORFs. <UL> <LI STYLE="font-size:10pt;">The <A HREF="/unknown_orfs/complexes.html">COMPLEXES</A> table lists the complexes we identified by mass spectrometry. Each complex is also annotated with a <A HREF="http://www.geneontology.org/" TARGET="GO_WINDOW">Gene Ontology (GO)</A> term for biological process. <LI STYLE="font-size:10pt;">The <A HREF="/unknown_orfs/listGO.html">GO LIST</A> gives the GO terms we have assigned to each of the uncharacterized ORFs for biological process, cellular component and molecular function. <LI STYLE="font-size:10pt;">The <A HREF="/unknown_orfs/listAll.html">STATUS LIST</A> shows which technologies have contributed experimental data for each of the 100 essential uncharacterized ORFs. If a technology failed to yield experimental data, the reason is also given in this table. </UL> <P STYLE="font-size:10pt;" ALIGN="left">Finally, the <A HREF="/unknown_orfs/about.shtml">About YRC</A> page will give you a brief description of the Yeast Resource Center, and provide a link to our official web site. <P STYLE="font-size:10pt;" ALIGN="left"><B>Supplementary Tables:</B> <UL> <LI><A HREF="table_S1.shtml">Table S1. Summary and convergence of data obtained from the four technologies.</A> <LI><A HREF="table_S2.shtml">Table S2. Assignment of GO terms for all the members of the YDR288w and YML023c DNA repair complexes.</A> </UL> </DIV> <!--#include virtual="/unknown_orfs/tmpl/footer.html"-->