Structure Made Simple

The article “Structure Made Simple: A step-by-step guide to reaching into structural biology databases and extracting the most for your research.” published in the magazine “The Scientist”  (volume 24(3); 2010) features some key resources in structural biology, including SWISS-MODEL

How do I find and view a structure?

Published structures are deposited in the Protein Data Bank (PDB) by accession number; simply enter that number (often listed in the structure’s publication) and go. (You may also view structures associated with published articles directly from their PubMed records.) Each PDB page includes a static 3D thumbnail of the structure, as well as links to explore the structure in other viewers, which allow you to rotate them freely, zoom in and out, identify residues, and so on.

One of the viewers in PDB, Jmol, is a Java-enabled viewer that requires no additional browser plug-ins, and is controlled via a scripting language and a right-click-enabled menu. Alternatively, try FirstGlance in Jmol, which simplifies the Jmol interface; written by Martz, it is now used by Nature and Nature Structural and Molecular Biology (via the 3D View link in the contents or in the full-text article). Another option:, a structure wiki developed by Joel Sussman, director of the Israel Structural Proteomics Center at the Weizmann Institute of Science, and Weizmann colleagues Jaime Prilusky, and Eran Hodis

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1 Komentar

Filed under In Silico

One response to “Structure Made Simple

  1. Assalamu’alaikum. wr. wb

    pak mau bertanya kenapa klw saat di doking sulit sekali pak apakah langkah2 mendoking berbeda – berbeda ya pak atau tergantung proteinnya,,,, terimhs,,,
    Wa Alaykum Mussalam
    Nanti kita diskusikan, entar kalau sy sdh balik

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