Question about how to obtain the initial model

[dahui-y]

Hi!

In step 6, Reference-based refinement, we need to input an initial model for refinement. I am wondering how we can obtain the initial model if we process another dataset. I am trying to reproduce the result of EMPIAR-10499. I am wondering if the initial model is the result of subtomogram averaging, which we can also find on the EMPIAR website.

Thanks

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17 Jan Updated

Extend this question: if we would like to investigate things with unknown structures in cellular, which cannot be found in the EMDB, how do we obtain the initial reference model?

[abartesaghi]

Yes, you can use that as a reference. You just need to make sure that the pixel size in the header of the .mrc file is set correctly (which I believe should be case for maps downloaded from the EMDB).

[dahui-y]

Thank you for your reply, Prof. Abartesaghi! Extend this question: if we would like to investigate things with unknown structures in cellular, which cannot be found in the EMDB, how do we obtain the initial reference model?