The relative orientation between the variable domains (VH and VL) influences the topology of the antigen binding site. It is important to consider when building high-resolution models of antibodies.
The VH/VL orientation can be represented by six measures:
|HL||the torsion angle between H1 and L1|
|HC1||the bend angle between H1 and C|
|HC2||the bend angle between H2 and C|
|LC1||the bend angle between L1 and C|
|LC2||the bend angle between L2 and C|
|dc||the length of C|
ABangle is a tool that calculates these angles from a PDB structure. Use the search forms below to use it to select antibodies based on their VH/VL orientation.
Click on parts of each graph to select the range of angles to search for.
Input a PDB code. To select a specific Fv, use its chain identifiers - for example, 12e8_HL.
Schneider, C., Raybould, M.I.J., Deane, C.M. (2022) SAbDab in the Age of Biotherapeutics: Updates including SAbDab-Nano, the Nanobody Structure Tracker. Nucleic Acids Res. 50(D1):D1368-D1372 [link]
Dunbar, J., Krawczyk, K. et al. (2014) SAbDab: the Structural Antibody Database. Nucleic Acids Res. 42(D1):D1140-D1146 [link]
Raybould, M.I.J., Marks, C. et al (2020) Thera-SAbDab: the Therapeutic Structural Antibody Database. Nucleic Acids Res. 48(D1):D383-D388. [link]