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How do you plot secondary structure like PDB?
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3.1 years ago
UnivStudent ▴ 430

Does anyone know the software PDB uses to draw the chain's secondary structure (DSSP line)? Or any other programs that can draw the same type of diagrams programatically?

Sequence_Chain_View

pdb plot draw secondary strucure ribbon • 2.0k views
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Anyone know how to do something like this?

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Have you tried the answer below? What is it you want to replicate specifically? That exact figure?

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Yes, I'm more looking for the helix + loop + sheet cartoon.

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I believe Jalview may also be able to show similar schematics, give that a try.

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3.1 years ago
Joe 19k

I'm not sure what PDB uses specifically, but you can get very similar results with ESpript. I think you usually use the output files of something like DSSP to dictate where the secondary structure lies, and then tools like ESpript render it on to the sequence.

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