RasMol and PDB Help

RasMol and PDB File Help Web Page

Click here to find out about downloading RasMol , a powerful yet simple-to-use (and free!) molecular imaging program.
Click here to explore various options for obtaining RasMol help .
Click here to find out about finding and downloading Brookhaven PDB files for virtually every available structure known to mankind.

Downloading RasMol

The RasMol Home Page at the University of Massachusetts, Amherst
- Here you will find a URL for downloading RasMol as well as a variety of web pages containing useful information and services, particularly as related to immunology.
For the latest versions of RasMol for all computer platforms, go directly to the RasMol ftp site in the United Kingdom.

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RasMol Help:

Hypertext Help Manual on the Internet, University of Massachusetts, Amherst
Tutorial for using RasMol
Click the RasMol icon to open an abbreviated summary guide of commands and instructions for using RasMol.

Setting up the RasMol Image and Command Windows

1. When RasMol is opened, two windows appear on your screen, an image window and a command window.

The image window displays the structure and includes pull-down menu options for modifying the structure image.

The command window displays information about the structure and includes a "RasMol>" prompt for entering specific commands for modifying the image.

2. The image and command windows are simultaneously active.

With the image window "on top" commands entered with the keyboard are recorded in the command window.
With the command window "on top" the image in the image window will change with commands entered with the keyboard.
list of properties describing the active structure.

3. Adjust the two windows so that the image window is "on top" and fills most of the screen and the part of the bottom of the command window "peeks out" underneath and below the image window. This way you can see what's going in both windows at the same time.

4. Load a structure file either 1) by using the File/Open option on pulldown menu of the image window or 2) by entering the following command at the "RasMol>" prompt; e.g.,

RasMol> load 'name.pdb'

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Finding and downloading Brookhaven PDB (protein database) files.

The NIH Center for Molecular Modeling
- Here you will find a complete guide to the molecular modeling services at the NIH.

- Here you will find a convenient listing of 3D structure files organized according to biological properties and coded according whether they have been solved without or with complexed ligands or inhibitors .

- Here you can search for and download specific 3D structure files.

The 3DB Browser
- Here you will find convenient menu options for obtaining several different types of structure files, including PDB files, and viewers for imaging these files.
- PDB files are downloaded as HTML files with URLs linked to such information as relevant heteroatom PDB structures and reference documents.

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