Overview

SiriusWB is a special edition of Sirius, a desktop environment that covers most of essential operations that are needed to visualize structures of proteins and small molecules. The Biology Wokbench edition is designed to run from within the web pages and enable users to easily access data stored in their Workbench account.

In addition to accessing information located in the Biology Workbench database, SiriusWB can connect to the Protein Data Bank to directly load structures. In addition, you can load data from structure and sequence files stored on your computer.

The specialized help topics below discuss the aspects specific to SiriusWB, while general application use is given in detail in the rest of the Sirius help system.

 

Major SiriusWB features include:

  • structure building from predefined fragments
  • structure editing (atom and residue replacement, rotating around bonds, changing bond orders, etc.)
  • scripting capability and command line interface compatible with existing RasMol scripts
  • detection of hydrogen bonds and steric clashes
  • protein structure alignment and structure superposition
  • sequence alignment with manual editing mode
  • interactive Ramachandran plot
  • support for all major structure/sequence file formats and image export
  • flexible selection system
  • export of high-quality 3D graphics

Topics

Listing and loading data from your account Describes how to access stored data, load and modify them
Saving new data How to save new data items