ICM-Browser

ICM-Browser is a free product of Molsoft, and provides access to structural biology data and protein families. It reads PDB or alignment files directly from online databases and provides a molecular graphics environment with various representations of proteins, DNA and RNA, and multiple sequence alignments.

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Supported file formats

• PDB structure files
• MDL molecular format
• Tripos mol2 format
• Tables/spreadsheets in portable *.csv or icm format
• Sequence and alignment files (fasta, swissprot, and other formats)
• Wavefront 3D objects
• ICM objects and ICM binary archives with multiple objects or molecular movies

Selected features

• PDB search engine with direct local access to all PDB files without downloading the database
• a molecular graphics tool box including multiple representations, fog effects, stereo, adjustable perspective, and multilevel selection
• colored alignments of publication quality, consensus coloring
• cross-selection between 3D objects, sequences and alignments
• selections at the secondary structure level

References

• R. Abagyan, W. H. Lee, E. Raush, L. Budagyan, M. Totrov, M. Sundstrom and B. D. Marsden, Disseminating structural genomics data to the public: from a data dump to an animated story, Trends in Biochemical Sciences, 31, 76-78, 2006. doi:10.1016/j.tibs.2005.12.006

See also

• Internal Coordinate Mechanics
• Molsoft