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Predicting the 3D structure of a protein

I would like to predict the 3Dstructure of a membrane protein. I cannot use homology modeling because the similarity with the template is less than 30%. In this case, which method I have to use for predicting the 3D structure? I also need to predict the ligands for the modeled protein. Your suggestions would be appreciated!

protein ligand prediction 3dstructure
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updated by natasha.sernova natasha.sernova • written by nbnbs727 • nbnbs727

2 answers

You have two option:

  1. Consider multiple template and go for homology modelling
  2. Do Protein threading prediction (http://zhanglab.ccmb.med.umich.edu/I-TASSER/)
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written by dasdevashishdas dasdevashishdas

See this article. It looks useful.

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4108304/

see table1 to find useful urls.

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4108304/table/T1/

See membrane protein explorer link below:

http://blanco.biomol.uci.edu/mpex/

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written by natasha.sernova natasha.sernova

Hii natasha.sernova....I have an query regarding mpex...that whether it can be used for hydropathy analysis as well?

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written by nmt980 • nmt980

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