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2D Representation Of Protein Sequence With Predictions Marked

Is there any tool or R package to draw 2D representation of protein sequence with predictions marked say disorder prediction, hydropathy, secondary structure prediction as shown in figure below ? (other than mydomains & domplot tool)

image

visualization r
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updated by Ram Ram • written by williamjohn360 williamjohn360

Did you get it from pdb.org ? You can ask the authors for an API.

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written by Pappu Pappu

Yes I got it from PDB. I like the idea of this visual representation.

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written by williamjohn360 williamjohn360

2 answers

You can use DOG (Domain Graph) tool from http://dog.biocuckoo.org/. It produces domain graph, you can add lines, domain suiting to your needs.

enter image description here

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written by jackuser1979 jackuser1979

Thanks. I hope it will fulfill my purpose.

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written by williamjohn360 williamjohn360

If you are not afraid of Perl, Bio::Graphics has all necessary functionality to produce a figure like this.

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written by Christian Christian

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