Question: Tools to analyze/relate protein structural information to its 3D information
1
gravatar for ishengomae
5.0 years ago by
ishengomae100
Tanzania, United Republic Of
ishengomae100 wrote:

Hi all.

Please I'm doing certain evolutionary analysis using Ziheng Yang's PAML/codeml and normally the tool will predict certain amino acid residues to be 'positively selected sites'. Now which tool will help me take these positive sites and then visualize their relationships to the three dimensional shape of the proteins (proximity to active sites, proteins domains, etc)?

Thanks.

active site protein 3d gene • 1.3k views
ADD COMMENTlink modified 4.9 years ago by a.polo88100 • written 5.0 years ago by ishengomae100
1
gravatar for a.polo88
4.9 years ago by
a.polo88100
Italy
a.polo88100 wrote:

depend if you have already the information about whis is the active sites, protein domain ect, than you can use Jmol to visualize the protein in a grapich way. but there is Pfam for protein domain, Ligplot+ to visualize which aa residues interact with the active sites and other tools

ADD COMMENTlink written 4.9 years ago by a.polo88100
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