Question: 2D Representation Of Protein Sequence With Predictions Marked
1
gravatar for williamjohn360
6.7 years ago by
Malaysia
williamjohn36090 wrote:

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)

R tools visualization • 2.9k views
ADD COMMENTlink modified 6.7 years ago by Christian2.9k • written 6.7 years ago by williamjohn36090

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

ADD REPLYlink written 6.7 years ago by Pappu1.9k

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

ADD REPLYlink written 6.7 years ago by williamjohn36090
1
gravatar for jackuser1979
6.7 years ago by
jackuser1979870
US
jackuser1979870 wrote:

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

ADD COMMENTlink written 6.7 years ago by jackuser1979870

Thanks. I hope it will fulfill my purpose.

ADD REPLYlink written 6.7 years ago by williamjohn36090
0
gravatar for Christian
6.7 years ago by
Christian2.9k
Cambridge, US
Christian2.9k wrote:

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

ADD COMMENTlink written 6.7 years ago by Christian2.9k
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