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CCMS Home

The Computational Center for Macromolecular Structure (CCMS) is distributing and supporting software for the determination and analysis of the structures of biological macromolecules. CCMS is a joint project of UCSD, The Scripps Research Institute, and the San Diego Supercomputer Center, supported by the National Science Foundation and the National Institutes of Health. Software is distributed and supported through the San Diego Supercomputer Center.

We distribute and support the following software packages. Please check our Policies page for more information.

DOT
DOT computes a short list of ideal low-energy orientations between a stationary and rotated proteins.
DEX
DEX (Deconvolution of EXchange data) is a complete package for calculating the backbone amide exchange populations of Hydrogen/Deuterium exchange (H/D exchange) experiments from high resolution mass spectrometry data.
Flex
Flex is a simple, portable molecular graphics program that interactively displays 3D ball-and-stick models on workstations running the Xwindows system.
Crevasse
Crevasse can be used with FADE to find pockets on protein surfaces. Crevasse can be set to find both small "druggable" pockets and larger, shallow sites of protein-protein interaction.

News

 We are pleased to announce that BETA version DOT 2.0.1 is now available for download. We welcome your comments on the software and the updated User Guide.