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Table 1 The test cases used for Assessment of Pep-3D-Search's performance in mimotope anlysis.

From: Pep-3D-Search: a method for B-cell epitope prediction based on mimotope analysis

PDB ID Antibody Antigen References Library size*
Antibody-antigen test cases
1jrh mAb A6 IFNgammaR Lang S et al.(2000) 59 × 5
1bj1 rhuMAb VEGF vascular endothelial growth factor ChenY et al. (1999) 36 × 6, 3 × 5, 2 × 4
1g9m mAb 17b gp120 Enshell-Seijffers D et al. (2003) 10 × 14,1 × 12
1e6j mAb 13b5 p24 Enshell-Seijffers D et al. (2003) 14 × 14, 2 × 7
1n8z Herceptin Fab Her-2 Riemer AB et al. (2004) 5 × 12
1iqd mAb Bo2C11 Coagulation factor VIII Villard S et al. (2003) 27 × 12
1yy9 Cetuximab Fab Epidermal Growth Factor Receptor Riemer AB et al. (2005) 4 × 10
2adf 82D6A3 IgG Von Willebrand factor Vanhoorelbeke K et al. (2003) 2 × 15, 3 × 6
Protein-protein test cases
1avz Fyn SH3 domain Nef Rickles RJ et al. (1994) 8 × 10, 10 × 12
1hx1 Bovine Hsc70 Bag chaperone regulator Takenaka IM et al. (1995) 8 × 15
  1. *Number of sequences × sequence length.