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  • Title: FragFit: a web-application for interactive modeling of protein segments into cryo-EM density maps.
    Author: Tiemann JK, Rose AS, Ismer J, Darvish MD, Hilal T, Spahn CM, Hildebrand PW.
    Journal: Nucleic Acids Res; 2018 Jul 02; 46(W1):W310-W314. PubMed ID: 29788317.
    Abstract:
    Cryo-electron microscopy (cryo-EM) is a standard method to determine the three-dimensional structures of molecular complexes. However, easy to use tools for modeling of protein segments into cryo-EM maps are sparse. Here, we present the FragFit web-application, a web server for interactive modeling of segments of up to 35 amino acids length into cryo-EM density maps. The fragments are provided by a regularly updated database containing at the moment about 1 billion entries extracted from PDB structures and can be readily integrated into a protein structure. Fragments are selected based on geometric criteria, sequence similarity and fit into a given cryo-EM density map. Web-based molecular visualization with the NGL Viewer allows interactive selection of fragments. The FragFit web-application, accessible at http://proteinformatics.de/FragFit, is free and open to all users, without any login requirements.
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