RasMol Manual: Table of Contents

Backbone Background Cartoon Center Clipboard Color Connect CPK Define Dots Echo Exit HBonds Help Label Load Monitor Pause Print Quit Refresh Renumber Reset Restrict Ribbons Rotate Save Script Select Set Show Slab Source Spacefill SSBonds Stereo Strands Structure Trace Translate Wireframe Write Zap Zoom

Internal Parameters Set something useful.

Section Introduction

Ambient Axes Backfade Background BondMode Bonds BoundBox Cartoon Display FontSize HBonds Hetero HourGlass Hydrogen Kinemage Menus Monitor Mouse Picking Radius Shadow SlabMode Solvent Specular SpecPower SSBonds Stereo Viewing Strands Transparent GIF UnitCell VectPS Write

Atom Expressions Identify something uniquely.

Section Introduction

Examples

Primitive Expressions

Comparison Operators

Within Expressions

Predefined Sets Define something in a class.

Section Introduction

AT Acidic Acyclic Aliphatic Alpha Amino Aromatic Backbone Basic Bonded Buried CG Charged Cyclic Cystine Helix Hetero Hydrogen Hydrophobic Ions Large Ligand Medium Neutral Nucleic Polar Protein Purine Pyrimidine Selected Sheet Sidechain Small Solvent Surface Turn Water

Table of amino acid classes

Colors and Color Schemes Color something specifically. Section Introduction & Predefined Colors Amino Chain CPK Group Shapely Structure Temperature Charge User HBond Type Potential (electrostatic) Tables of RasMol Color Schemes: Predefined Amino/Shapely CPK

Files and File Formats Load something interesting. Section Introduction Brookhaven PDB Files with an annotated Example: 1crn.pdb Other File Formats: MOPAC Alchemy IRIS RGB MDL Mol Machine Specific Support: X Windows; Tcl/Tk; UNIX Sockets; RasWin with Borland.

Bibliography from the RasMol v2.5 Manual

Back to Molecular Models for Biochemistry at CMU. Dr. William McClure wm0p@andrew.cmu.edu Department of Biological Sciences Carnegie Mellon University Pittsburgh, PA 15213