SciVis - IFC CNR

In these pages we provide the results of a new representation system for molecules, based on the code developed in BioBlender, as an application of SpiderGL, described in Callieri et al.. While this visualization does not allow for animation, it offers the possibility of direct user interaction: use your Left Mouse Button to rotate the molecule(s), the wheel to zoom in and out and the commands at the bottom to change the view (add/remove EP line particles; toggle stereo view as side-by-side or anaglyph; see underlying atoms through a lens or in the entire molecule). For the side-by-side view, the user can modify the distance between the 2 views using the keyboard: a to increase and z to decrease.

Surface texture represents the MLP (lipophilic potential) calculated using an atom-based formula (Testa) as described in Andrei et al.. Values are converted to scale of shine/smooth (very hydrophobic) to dull/rough (very hydrophilic).

Electrostatic Potential (EP) is calculated in the space of the protein using APBS, converted to vector grid, and the grid is used for drawing EP lines, in proportion to the local charge at the protein surface. Particles travel along the lines in the direction of negative charge.

We do plan to set up an automatic server in the future, however we are still studying different possible visualization and implementation systems, and cannot say at this moment when.

Please contact us if you wish to have your protein represented using this code or if you are interested in any other aspect of this work. Both compliments and constructive critiques are also very welcome.

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Latest news

NANOPLANET in Australia

Our short NANOPLANET is on display at The Cube, one of the world's largest digital interactive learning and display, in Brisbane, Australia.
Visit the site for more info, and an exciting array of activities and programs.
 
Molecular Dynamics Concert

VISIONICA will present a Molecular Dynamics Concert, at the Mediateca in Milano, on April 9, 6:00 pm. There will be live music, with various musicians that will interpret some of the visualizations made by SciVis.
 
New video: DCM

Our last work, "Dilated Cardiomyopathy. A molecular view",  is now available on Vimeo.
The short movie, created in collaboration with Tonino Bombardini, provides a visual explanation of some of the molecular features at the basis of Dilated Cardio Myopathy.
The different scenes show details of the heart muscle, and the way they work at different times (at rest or during exercise) and in different conditions.