Dear all,
Can anyone provide me with a software or a webtool for drawing 2D-topology for a protein from a sequence similar to the one provided in the following figure?
2DProts https://2dprots.ncbr.muni.cz ( Article 2DProts: Database of Family-Wide Protein Secondary Structure Diagrams
) uses a higher level of abstraction (e.g. beta-strands as simple arrows ).Protter https://wlab.ethz.ch/protter/start/ uses the representation standard for GPCR and immunoglobulins (collier de perls, IMGT, https://www.imgt.org/3Dstructure-DB/doc/IMGTCollier-de-Perles.shtml ).
The fact that a Google Lens image search did not find anything similar leads me to doubt that this figure was created by an easily accessible server.
Inconsistency in the highlighting ellipses and irregularities in the lower righthand loops lead me to conclude that it was not automatically generated.
If I had to reproduce the image style for a publication, I would import the 2DProts representation into a general graphic program (Inkscape, Canvas Draw, Corel Draw, Adobe Illustrator), then in a second layer, draw the lines, and arrows of the chain trace, in a third layer place the residue labels and shapes on this trace and add the additional domain labels, before removing the 2DProts representation that served as a template for the fold.
Thank you, that's very helpful.
Indeed there is no server online that provides the same illustration, I tried the (Hera) topology produced by the PDBsum, then using the fasta sequence, and the biorender I was able to generate the same topology. But it was very laborious and took lots of time.
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