Export an individual protein

If you would like to export your protein, open the protein file of interest in Benchling. 

  1. Click on the Information icon on the right side toolbar

  2. Under "Export Data," choose whether you would like to export the protein in the FASTA (.fasta) or GenPept (.gp) format 

  3. Click "Download"

Bulk export

Benchling also has the ability to bulk export data. You can export all of the items in a project or folder by clicking on your avatar in the bottom left > "Data Export" > "All Items (ZIP Archive)"

From there, you can choose which folder you want to export, and all of the proteins in that folder will be exported in FASTA format.

Note: Exporting "All Items" will export all of the entries and DNA sequences in that folder as well. If you only want to export your proteins, move all of your protein files into one folder and export that folder.

How do I export my protein alignment?

Instead of trying to fit everything into a screenshot, our export to tools make it easy to export your alignment as a FASTA, .png, or PDF file and insert it directly into your presentations.

To do so, navigate to the upper right hand corner of the alignment tool bar and click the export icon:

Choose between FASTA, .png, or PDF.

If the protein alignment is exported as a .png, a preview of the image will appear in a pop up window prior to download. The image will be a full screen capture of what you see in the alignment.

If the protein alignment is exported as a PDF, it will generate a paginated PDF that is optimal for publications, patents, and regulatory filings. From the pop up window, you can select the number of amino acids per line and turn on highlighting for conserved vs. non-conserved amino acids.

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