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  • vipul
    Junior Member
    • Jun 2014
    • 3
    #1

    How to correct bad bond lengths and angles in protein model?

    Hi everyone,
    I generated model for a enzyme using Modeller software and after validating it I transferred a ~12 res. peptide from another Enzyme-peptide complex into the active site of my model. I then validated it using MolProbity which showed presence of Clashes, bad bond lengths and bad angles (outliers: 17/271). I used Chiron to remove bad clashes but am unable to find a tool/strategy to remove bad bond lengths and bad angles. Is there any way I can fix this problem? Kindly guide me in the right direction.

    Thanks
    Tags: protein geometry
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