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. 2011 Mar 28;6(3):e17946. doi: 10.1371/journal.pone.0017946

Table 4. Bioinformatic analysis of isolated NS1 ED strand-strand dimer characteristics.

Strain Dimer Symmetry relationship Interface accessible surface area (Å2)* Interface accessible surface area (%)* Planarity (Å)* Local density** Gap Volume (Å3)* Gap Volume Index (Å)*
PR8 2GX9_ABSS asymmetric 603 7.7 2.51 32.3 5812 4.82
3O9U_AF asymmetric 345 5.2 2.66 22.9 4357 6.31
3O9U_BD asymmetric 442 6.6 2.47 25.5 4165 4.71
3O9U_CH asymmetric 482 7.3 2.21 30.4 5461 5.67
3O9U_EG asymmetric 514 7.7 2.48 31.6 5883 5.73
Mean 477 6.9 2.47 28.5 5135 5.45
Standard deviation 95 1.1 0.16 4.1 817 0.67

ED strand-strand dimers identified as PDB ID_chains (e.g. dimer 3O9U_AF is formed by chains A and F of structure 3O9U). The strand-strand dimer formed by chains A and B of PR8 structure 2GX9 is identified by a superscript SS to distinguish it from the helix-helix dimer also made by those chains (see Table 3). All values calculated using either ProtorP (*) or ProFace (**).