ICM-Browser 3.7.2a

ICM-Browser provides a rich professional molecular graphics environment
ICM-Browser provides a biologist or a chemist with direct access to the treasures of structural biology and protein families.It reads a variety of file formats directly from the database web-sites including: PDB, chemical, electron density maps, sequence and alignment files.

ICM-Browser provides a rich professional molecular graphics environment with powerful representations of proteins, DNA and RNA, and multiple sequence alignments.

The ICM-Browser is ideal for:

- Scientists  who want to share their data via fully-interactive and annotated 3D slides via PowerPoint or on the Web.
- A biology student or researcher to look at biological structures from the PDB asell as sequences and alignments.
- A chemist who wants to view chemical structures and ligand-receptor interactions.
- A researcher who wants to look at annotated models or alignments built by a modeler colleague who uses other ICM tools.

Main features:

  • Build and Save Fully-Annotated and Interactive 3D Files and Display them in PowerPoint and on the Web (Patent Pending). Save multiple annotated and animated fully-interactive 3D views and slides of your molecules to display in PowerPoint and on the web using the free ActiveICM plugin. Automatically memorize viewpoints, slides, animations, and transitions all stored within a single file. Share the file with your colleagues via Microsoft products, web browsers or in the free ICM-Browser itself.
  • Display Transparent Ligand Binding Pocket Surfaces. Display ligand binding pocket surface colored by binding property. White=neutral surface, Green=hydrophobic surface, Red=hydrogen bonding acceptor potential, and Blue=hydrogen bond donor potential. In order to display the property surface the PDB file needs to be converted into an ICM object.
  • Add and Optimize Hydrogens to a PDB file and Display Hydrogen Bonds. You can now convert a PDB file into an ICM object which is a full-atom representation of the molecule. The hydrogen atoms can be optimized to identify their energetically optimal positions. Once hydrogens are added to the molecule hydrogen bonds can be displayed.The coloring of the hydrogen bonds are red (strong - thick spheres) to blue (weak - thin spheres).
  • Generate and Display Surfaces. Generate and display molecule surfaces (meshes). Display in dot, wire, solid rugged, solid smooth or smooth transparent representation.
  • Load and Display Many Molecular Structure and Sequence File Types. ICM-Browser supports many different file types for protein structures, chemicals, sequences, alignments and other objects.
  • Combined Views, Animations and Slides (Patent Pending). Create ICM Molecular documents and presentations, memorize viewpoints and slides, automatically memorize animations and transitions stored within a single file.
  • Publication Quality Molecular Graphics. Utilize a full and robust array of graphics tools all accessible from a GUI interface. Display your molecules in wire, CPK, ball & stick, worm, ribbon, accessible surface, transparent molecular surface, perspective, depth cueing, smooth and rugged solid surfaces. Use both hardware and side-by-side stereo.
  • Powerful PDB Search Engine. ICM-Browser gives you direct access to the Protein Structure Databank (PDB). Type in a search string and a table of structures matching your search will be diplayed. Double click on the table and the structure will be downloaded and displayed in the graphical user interface.
  • Powerful PDB Search Engine. ICM-Browser gives you direct access to the Protein Structure Databank (PDB). Type in a search string and a table of structures matching your search will be diplayed. Double click on the table and the structure will be downloaded and displayed in the graphical user interface.
  • View and Make High Resolution Images of Alignments Alignments can be directly linked to the displayed 3D structure. Alignments can be annotated, boxed and colored, the alignment can be exported as a high-quality image for publication.
  • Superimpose Protein Structures. Select the region of the molecules you wish to superimpose and then with one click the molecules will superimpose.
  • Measure Distances and Angles. Measure distances between atoms, calculate planar and torsion angles.

last updated on:
October 7th, 2010, 13:01 GMT
price:
FREE!
developed by:
Molsoft LLC
homepage:
www.molsoft.com
license type:
Freeware 
category:
ROOT \ Science and Engineering \ Chemistry

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