CryoREAD is a de novo DNA/RNA structure modeling tool using deep learning for a cryo-EM map of up to 10 Å resolution.

CryoREAD was originally developed for modeling for maps up to 5 Å resolution, but now we upgraded the neural network to better predict nucleotides up to 10 Å.

If encounter problems, please contact Daisuke Kihara (dkihara@purdue.edu) or Xiao Wang (xiaowang20140001@gmail.com)

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Example EMD-21051
Input Map file:21051.mrc

Input Sequence file:21051.fasta

Contour level: 0.6

Resolution: 3.7

Result Example:Result Example
Tutorial PPT Tutorial Web.

Video Tutorial:

Reference: https://www.nature.com/articles/s41592-023-02032-5

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Please simply click "Schedule Job" when you filled all input fields.

Please make sure your contour level is lower than your focused region. This is absolute density threshold, not standard deviation.

If you are not sure, just use threshold 0, our model can automatically detect the structure regions.

contour_level :

CryoREAD is originally designed for maps at a resolution better than 5 Å. Now it is extended for up to a 10 Å resolution, although a higher accuracy is expected for maps better than 5 Å.

Resolution information is needed for refinement by phenix.real_space_refine.

resolution :


cryo_em_map :

If you do not know sequence information, you can skip to upload the fasta file.

We accept fasta files that includes proteins, where protein sequence will be automatically ignored. If it has multiple copies of the same nucleic acid sequence (homo-multimer), include the sequence exactly the number of times corresponding to the copies in the complex.

fasta(optional) :