ICM Browser Pro.

High quality visualizer and annotator for three dimensional molecular structures, annotated sequences and alignments, chemical spreadsheets and biological data. Allows to read data from multiple file formats, annotate the data, and write multi-slide document containing to a single small cross-platform file. ICM Browser Pro is well suited for creating, storing and sharing structural, biological and chemical information. These files then can be opened and viewed with the free ICM Browser.

Downloading and Buying ICM Browser Pro.

Download and install ICM Browser Pro,
After you have downloaded the ICM Browser, go to its Help/Upgrade Product menu and follow instructions to pay online using a credit card payment system.

Prices for ICM Browser Pro (from $99)

Buy Now.

Overview

Presenting a story about a macromolecular structure, its biological function and evolution, to a non-structural audience in an easy and compelling way poses a considerable challenge. ICM Browser Pro gives molecular biologists, medicinal chemists, clinicians, students a better way of accessing such information as it is being produced by structural genomics centers and individual laboratories.

Currently to understand molecular function in the context of three-dimensional structure, one needs to assemble four different sources of information:

a story comes from a printed article (or a pdf file) with specific but fixed a non-interactive 2D images,
a general 3D object can be obtained by downloading a pdb file and using a PDB viewer
structural animations are created as separate very large video files
alignments, chemical spreadsheets, data, plots, trees are either static pictures or need to be viewed in different viewer programs.

ICM Browser Pro integrates text, data, multiple specific views, interactive 3D browsing and multiple 3D animations and allows to save this animated presentation to a single platform-independent document that can be viewed with the free ICM browser. This "guided interactive 3D tour" which can easily be exchanged between scientists. Multiple specific views and animated transition and accompanied by all the necessary data, including alignments, text, spreadsheets and graphs, yet each view is fully interactive and can be further modified and annotated by the reader using ICM Browser Pro. Some examples of the .icb files can be found here.

Platforms. The browser is available for Windows, Macintosh, Linux and SGI.

It includes high school, college or graduate students, teachers, life science or chemistry researches in academia and industry.

Features and Benefits

Structure, maps, and molecular graphics

Read several 3D structure formats ( .pdb , .icb, .ob, .mol )
Read and display electron density maps
Apply crystallographic symmetry
Apply biological symmetry to build a bio-molecule (e.g. the whole virus particle)
Automatically assign correct bond types and formal charges for thousands of ligands
Annotate residues and sites
Export publication quality molecular images at high resolution
High quality molecular surface representation ( skin ) and ribbon representations.
Easy control of thickness, color and type in molecular graphics
Visual effects: dynamic shadows, fog, hardware and side-by-side stereo, clipping planes, full screen
Easy to use and control animation effects: rotations, rocking, zooming
Analysis and structure manipulations: assignment of correct secondary structure from hydrogen bonds, structure superpositions, selections, neighbors.

Sequences and Alignments

Read most sequence and alignment formats
Extract sequences from 3D structures
Multiple coloring of the alignments
Alignment and sequence annotations: boxes, text comments
Convenient residue picking and full connection with the 3D structure

Chemical Spreadsheets and Data Tables

Reads several chemical or table formats ( .sdf , .mol, .mol2, .icb .smi )
Multiple tabbed spreadsheets can be compared side-by-side
Automatically converts the compounds features into table columns
Powerful and fast views (chemical grid view)
Multiple chemical viewing styles
Built-in chemical editor with fragment dictionary and templates
Saves the chemical spreadsheets in multiple formats

Combined Views, Animations and Slides (Patent Pending)

ICM Molecular Documents and Presentations - Patent Pending
Memorize a view, a slide, with all attributes with a single click
Automatically memorize the animation state of a slide
Allow smooth animated view transitions between slides
Memorize the layout of tables, alignments, chemical spreadsheets go with a particular slide
Read in or create an text annotation window with hyperlinks
Allow hyperlinks to perform actions in the graphics window
Write the multi-slide, multi-object presentation (or document) into a small single cross-platform file ( an .icb file) - Patent Pending

Extending the ICM Browser Pro environment

ICM Pro

ICM Pro is a superset which includes ICM-Browser Pro as a part. In addition ICM Pro contains tools for structure prediction, docking, mutation modeling, electrostatic calculations, energy calculations, structure annotation and function prediction such as ligand pockets, protein interfaces, compound properties, alignment building and editing, mathematical modeling.

Molcart and Molcart Compounds

These products adds a database for millions of chemical compounds and their properties to your environment. ICM-Browser Pro with Molcart client can search in this database and show the results in ICM-Browser-Pro.