Table 1.

General data categories in GATMD

General data category

Study citation Protein studied WT or mutant protein, or control cells Mutation information Data presentation in publication Basic experimental information Experimental methods used Transporter operation mode and transport direction Cell-surface biotinylation, SDS–PAGE and immunoblot analysis Total and cell-surface transporter expression Reconstitution into proteoliposomes Na+- and Cl–-dependence examined Ion replacement experiment Inhibition experiment Sulphydryl modification experiment Treatment with other drugs Tracer flux experiment Electrophysiology experiment Tracer uptake under voltage clamp Transporter turnover rate determined Steady-state kinetic parameters determined Immunohistochemistry and/or immunofluorescence experiment Cellular localization and/or trafficking experiment Real-time optical measurements Binding assay and/or immunoprecipitation experiment Overall assessment of mutant transporter Main conclusion of experiment Main conclusion of study Comments

The general data categories shown in this table (each of which contains many subcategories; see ‘Search’ page online) were used to manually annotate all published mutagenesis studies of GAT1. Within the XML data document, each of the categories shown (modified to conform to XML tag naming conventions) served as a child element to a ‘GATMDExperiment’ parent element. Each category contains one or more subcategories (i.e. child elements). Please see under the Advanced Search Functions menu on the ‘Search’ page online for a full listing of these subcategories. The entire hierarchical tree structure the ‘GATMDExperiment’ parent element can be found online at: http://physiology.sci.csupomona.edu/GATMD/data_structure.xml, where for simplicity, element attributes have been omitted.