membrane ab-initio modeling, is the quality comparable to comparative modeling of 20% id template?

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    • April 7, 2011 at 2:57 pm #855
      Anonymous

        Dear All,

        I would like to try your membrane ab-initio modeling protocol of rosetta, to model a membrane protein of 6 TM regions. But I am not sure how your protocol should perform compared to homology modeling, this protein has 370 aa and has a distant template of about 20% id for 300 aa region. I wonder if rosetta ab-initio method could produce equivalent or better results than the comparative modeling based on the template we have, and what is the best course to follow. And wether or not the results will be comparable.

        Best regards and thanks a lot,

        Fabian

        —
        =========================
        Fabian Glaser, PhD
        Bioinformatics Knowledge Unit,
        The Lorry I. Lokey Interdisciplinary
        Center for Life Sciences and Engineering
        Technion – Israel Institute of Technology
        Haifa 32000, ISRAEL

        E-mail: fglaser@technion.ac.il
        Tel: +972-4-8293701
        Fax: +972-4-8225153

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