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- 0.99beta11
- 2. Translucent Surfaces
- 2to3
- 3DNA
- 3Dstrut
- 3d pdf
- AAindex
- AKMT Lys pred
- APBS
- APBS Electrostatics Plugin
- Aa codes
- Abort
- About
- Advanced Coloring
- Advanced Scripting
- Alias
- Align
- All states
- AlphaToAll
- Ambient
- AngleBetweenHelices
- Angle between domains
- Annocryst
- Annotate v
- Annotation wizard
- Antialias
- Apbsplugin
- Apropos
- Assembly
- Async builds
- Atom name wildcard
- Attach
- AutoMultiFit
- Auto arg
- Auto show classified
- Auto zoom
- Autodock plugin
- Average b
- Axes
- Axpymol
- Azahar
- B2transparency
- Backface cull
- Backward
- Ball and Stick
- BbPlane
- Bg Color
- Bg gradient
- Bg rgb
- Bg rgb bottom
- Bg rgb top
- Biochemistry student intro
- BiologicalUnit
- BiologicalUnit/Quat
- Blender
- Bnitools
- Bond
- Bondpack
- Bounding Box
- Builder
- Button
- Button mode name
- CASTp
- CBC
- CCTBX
- CCTBX-fedora32
- CGOCylinder
- CGO Text
- CMPyMOL
- CMYK
- COLLADA
- Cache
- CalcArea
- Capture
- Cart to frac
- Cartoon
- Cartoon Helix Settings
- Cartoon all alt
- Cartoon color
- Cartoon cylindrical helices
- Cartoon discrete colors
- Cartoon dumbbell length
- Cartoon dumbbell radius
- Cartoon dumbbell width
- Cartoon fancy sheets
- Cartoon flat cycles
- Cartoon flat sheets
- Cartoon gap cutoff
- Cartoon helix radius
- Cartoon highlight color
- Cartoon nucleic acid color
- Cartoon nucleic acid mode
- Cartoon oval length
- Cartoon oval quality
- Cartoon oval width
- Cartoon putty radius
- Cartoon putty scale max
- Cartoon putty scale min
- Cartoon putty transform
- Cartoon rect length