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10.1016/j.ymeth.2016.03.007 http://scihub22266oqcxt.onion/10.1016/j.ymeth.2016.03.007 C4854230!4854230 !26988127     free     free     free Warning: file_get_contents(https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id=26988127 &cmd=llinks): Failed to open stream: HTTP request failed! 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Refinement of atomic models in high resolution EM reconstructions using Flex-EM and local assessment |pdf=|usr=}}{{26988127 }} gab.com Text Refinement of atomic models in high resolution EM reconstructions using Flex-EM and local assessment JO: Methods http://www.kidney.de/pget.php?&tw=1&pmid=26988127 #FOAvip As the resolutions of Three Dimensional Electron Microscopic reconstructions of biological macromolecules are being improved, there is a need for better fitting and refinement methods at high resolutions and robust approaches for model assessment. Flex-EM/MODELLER has been used for flexible fitting of atomic models in intermediate-to-low resolution density maps of different biological systems. Here, we demonstrate the suitability of the method to successfully refine structures at higher resolutions (2.5-4.5Å) using both simulated and experimental data, including a newly processed map of Apo-GroEL. A hierarchical refinement protocol was adopted where the rigid body definitions are relaxed and atom displacement steps are reduced progressively at successive stages of refinement. For the assessment of local fit, we used the SMOC (segment-based Manders' overlap coefficient) score, while the model quality was checked using the Qmean score. Comparison of SMOC profiles at different stages of refinement helped in detecting regions that are poorly fitted. We also show how initial model errors can have significant impact on the goodness-of-fit. Finally, we discuss the implementation of Flex-EM in the CCP-EM software suite. Twit Text FOAVip Refinement of atomic models in high resolution EM reconstructions using Flex-EM and local assessment ????Methods http://www.kidney.de/pget.php?&tw=1&pmid=26988127 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=26988127 #FOAvip English Wikipedia <ref>{{Cite pmid|26988127 }}</ref> Refinement of atomic models in high resolution EM reconstructions using Flex-EM and local assessment #MMPMID26988127 Joseph AP ; Malhotra S ; Burnley T ; Wood C ; Clare DK ; Winn M ; Topf M Methods 2016[May]; 100 (ä): 42-9 PMID26988127 show ga As the resolutions of Three Dimensional Electron Microscopic reconstructions of biological macromolecules are being improved, there is a need for better fitting and refinement methods at high resolutions and robust approaches for model assessment. Flex-EM/MODELLER has been used for flexible fitting of atomic models in intermediate-to-low resolution density maps of different biological systems. Here, we demonstrate the suitability of the method to successfully refine structures at higher resolutions (2.5-4.5Å) using both simulated and experimental data, including a newly processed map of Apo-GroEL. A hierarchical refinement protocol was adopted where the rigid body definitions are relaxed and atom displacement steps are reduced progressively at successive stages of refinement. For the assessment of local fit, we used the SMOC (segment-based Manders' overlap coefficient) score, while the model quality was checked using the Qmean score. Comparison of SMOC profiles at different stages of refinement helped in detecting regions that are poorly fitted. We also show how initial model errors can have significant impact on the goodness-of-fit. Finally, we discuss the implementation of Flex-EM in the CCP-EM software suite. |*Imaging, Three-Dimensional [MESH] |*Software [MESH] |Adenylate Kinase/chemistry/ultrastructure [MESH] |Chaperonin 60/chemistry/ultrastructure [MESH] |Cryoelectron Microscopy [MESH] |Escherichia coli Proteins/chemistry/ultrastructure [MESH] |Eukaryotic Initiation Factors/chemistry/ultrastructure [MESH] |Models, Molecular [MESH]Refinement of atomic models in high resolution EM reconstructions usin(epmc).pdf DeepDyve Pubget Overpricing