DUmin.jpg ProteinGlimpse 1.6
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Universal Icon
ProteinGlimpse 1.6 is a Tiger and Leopard compatible free widget for visualizing macromolecules retrieved from the RCSB Protein Data Bank.

New features

  • Tiger and Leopard compatible
  • Jmol 11.4.2 applet added

Description

It is powered by Jmol, a free, open source molecule viewer for students, educators, and researchers in chemistry and biochemistry. The JmolApplet, used in this widget, is a web browser applet that can be integrated into web pages, as in this dashboard application for Mac OS X, due to the use of WebKit implementation in Tiger. ProteinGlimpse screenshot

This widget has been developed by Jaime Fernández Vera as a work for a bioinformatics project. It was inspired by the FirstGlance in Jmol project.

ProteinGlimpse is a Universal application, that means it is made to run on both Intel and PowerPC based Mac computers.

Acknowledgments

I would like to thank Daniel Gasco Rodríguez for the astonishing graphical interface provided for this widget.

First Steps

1. Insert a proper Protein Data Bank code (four characters long, starting with a numeral) and press intro to start the search, or just drag any file, whose format can be supported by Jmol, containing the structure of your favorite molecule over ProteinGlimpse.

2. The widget, if the file is available, will retrieve and display the macromolecule in cartoon fashion, unless you would have draged it in the previos step. In this case the molecule will be shown as balls and sticks.

3. Then you can play around with the macromolecule pressing the buttons, checkboxes and the zoom pop-up to run the scripts linked to them, or just using the mouse, or the jmol pop-up menu for a greater and free control.

Macromolecule examples

If you are not conversant with macromolecules but you would like to have a glimpse of them, here you have some instances:

  • The insulin hormone 1APH
  • Topoisomerase I/DNA Complex 1A36
  • The DNA double helix (B form) 1BNA
  • The Transfer RNA (Phe), 4TNA
  • The HIV protease with inhibitor, 4PHV
  • Inosine Monophosphate Dehydrogenase in complex with Mycophenolic Acid, 1JR1
  • Green fluorescent protein, 1EMB.
  • Hemoglobin, deoxy, 1HGA.

System Requirements

Mac OS X 10.4.0 or later and Internet connection.