Table 2.

Quality statistics of GEM-PRO models

Model	PDB coveragea	Homology model coverageb	PDB quality scorec	Homology model quality (TM-score)d
T. maritima	136/478	342	0.82 (0.86)	0.79
E. coli	490/1366	1366	0.77 (0.95)	0.82

^aNumber of total genes with PDB structures (includes minimally modified) after QC/QA; ^bNumber of total genes with homology models. Note that there may be overlap between PDB and homology model coverage; ^cMean quality score of PDB structures in the GEM-PRO model for all available PDB structures. In parentheses are the subset of “best representative structures” for all metabolic gene (as ranked by the QC/QA pipeline), scaled (0, 1] where 0 is low quality and 1 is the highest quality; ^dMean quality score of the homology models taken from the I-TASSER TM-score metric, is the range [0,1] with a value >0.5 implying correct topology of the model [28]