| Template | Total score | BLAST E-value | Alignscore | Cover | PDB ID | Resolution | Description |
| 1 | 208.5 | 5.00E−124 | 612 | 82% | 4F4C-A | 3.40 Å | The crystal structure of the multi-drug transporter [22] (1250 residues with quality score 0.417) |
| 2 | 201.26 | 2.00E−108 | 563 | 77% | 4Q9H-A | 3.40 Å | P-glycoprotein [13] (1182 residues with quality score 0.467) |
| 3 | 194.45 | 3.00E−109 | 559 | 77% | 4M1M-B | 3.80 Å | Corrected structure of mouse P-glycoprotein [23] (1180 residues with quality score 0.454) |
| 4 | 176.57 | 3.00E−109 | 558 | 77% | 4M2T-A | 4.35 Å | Corrected structure of mouse P-glycoprotein bound to Qz59-sss [23] (1188 residues with quality score 0.413) |
| 5 | 175.56 | 1.00E−108 | 552 | 76% | 4KSD-A | 4.10 Å | Structures of P-glycoprotein reveal its conformational flexibility and an epitope on the nucleotide-binding domain [24] (1182 residues with quality score 0.417) |