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Small Angle X-ray Scattering Initiative for Europe :: Forum
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PostPosted: 2017.04.19 15:55 
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Hello,

We are working on elongated coiled coil proteins and are trying to modelling them using ab initio methods. Currently using dammin/f and notice that it seems to struggle with the elongated nature of the proteins and tries to fit "bulk" into the envelope. We have so far used the default parameters for both programmes. What dammin/f parameters would be best for elongated particles? Or are there better ways for modelling these types of elongated particles?

Would appreciate any help or knowledge on this!

Thank you!


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 Post subject: anisometry = PROLATE
PostPosted: 2017.04.21 14:59 
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Joined: 2007.08.03 18:55
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Location: EMBL Hamburg, Germany
You could set --anisometry=PROLATE in DAMMIF and DAMMIN; you can adjust Anisometry penalty weight in the interactive mode.

In DAMMIF you can set Expected shape to 'extended'.

In DAMMIN you can set Initial DAM to 'cylinder' or 'ellipsoid'.


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