PoreWalker: A Novel Tool for the Identification and Characterization of Channels in Transmembrane Proteins from Their Three-Dimensional Structure
Figure 2
Changes of the pore axis during PoreWalker calculation for the ASIC1 acid-sensing ion channel (PDBcode 2qts [46]).
Step 1: the 3D structure as submitted to the program. Step 2. Preliminary definition of the pore axis (shown in red). Step 3. Definition of pore centre and translation of the pore axis so that it passes through it (axis shown in red). Step 4–8. Iterative identification of local pore centres (red spheres) and variations in the position of the pore axis (green) during the refinement of the pore axis. Step 9. PoreWalker output.