Coporate Profiles

SPACEBALL v. 2.0

The method and the parameters are described in our papers:

M. Chwastyk, M. Jaskolski, M. Cieplak, Structure-based thermodynamic and mechanical stability of plant PR-10 proteins with cavities.
FEBS J. 281: 416-429 (2014) (see http://onlinelibrary.wiley.com/doi/10.1111/febs.12611)

M. Chwastyk, M. Jaskolski, M. Cieplak, The volume of cavities in proteins and virus capsids.
Proteins. 84(9): 1275-1286 (2016) (see https://onlinelibrary.wiley.com/doi/abs/10.1002/prot.25076)

To start the calculations, you should provide adequate parameters. Fields marked by an asterisk (*) are required. We can check your parameters before the start of the calculations, but it may take some time. If you wish that, just mark the box "Please check my parameters". We recommend to use the default parameters, except that the number of rotations, which should be increased for more accurate results. 100 rotations is very accurate. You should copy and paste the PDB file of your structure into the window provided. It is important to keep the standard PDB format. The results will be sent to your e-mail address. You can contact us directly using the e-mail address spaceball_contact@ifpan.edu.pl or by filling the contact window.

evaluation of protein cavities


Probe radius:
Å (*)
Grid in the x direction:
Å (*)
Grid in the y direction:
Å (*)
Grid in the z direction:
Å (*)
Number of rotations:
(*)

If the structure file contains nucleotides,
should they be taken into account?

E-mail: (*)

Please check my parameters

Paste the PDB file below:
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or upload the PDB file from drive:



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E-mail: spaceball_contact@ifpan.edu.pl

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results of the survey of structures deposited in Protein Data Bank


Protein ID :