Calculate: Torsion angle plot Surfaces (MSMS) Accessible surface (Gerstein) Voronoi Volume (Gerstein) Bfactor plot Hydrogen bonds (Levitt) Hydrogen bonds (Lesk) Mainchain hydrogen bonds Secondary structure Fasta format sequence Raw PDB data Spinning molecule movie Output type: Graphics Postscript/PDF Text Raw
Surface probe size: 0.8 1.3 1.4 1.5 1.6 Å Atoms to use: No Hetatms Atoms + Hetatms All atoms except waters
Method: Normal Voronoi Method B Radical Plane Modified Method B Radii: Chothia Radii Richards Radii Atoms to use: No Hetatms Atoms + Hetatms All atoms except waters
Return what: Entire PDB file Header only Atoms + Hetatms Atoms only Hetatms only Waters only
Initial orientation of molecule: X-axis: Y-axis: Z-axis:
Display: backbone wireframe ribbons ball&stick spacefill Colors: group cpk temperature chain charge structure Background: black white
Rotate around: y x z Rotation angle: 15 30 60 90 120 180 360 No. of frames: 10 20 30 40 50 60
Indie format: Animated gif Mpeg movie Size : 100x100 200x200 300x300 400x400 (pixels) Delay: 5 10 15 20 30 40 50 (gif only)
Hint: To slow down the movie, increase the number of frames
