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10.1038/s41467-021-23692-x http://scihub22266oqcxt.onion/10.1038/s41467-021-23692-x 34099703!8184972!34099703     free     free     free Deprecated: Implicit conversion from float 215.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 215.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Warning: imagejpeg(C:\Inetpub\vhosts\kidney.de\httpdocs\phplern\34099703.jpg): Failed to open stream: No such file or directory in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 117       Nat+Commun 2021 ; 12 (1): 3399 Nephropedia Template TP {{tp|p=34099703|t=2021. Assessment of protein-protein interfaces in cryo-EM derived assemblies |pdf=|usr=}}{{34099703}} gab.com Text Assessment of protein-protein interfaces in cryo-EM derived assemblies JO: Nat Commun http://www.kidney.de/pget.php?&tw=1&pmid=34099703 #FOAvip Structures of macromolecular assemblies derived from cryo-EM maps often contain errors that become more abundant with decreasing resolution. Despite efforts in the cryo-EM community to develop metrics for map and atomistic model validation, thus far, no specific scoring metrics have been applied systematically to assess the interface between the assembly subunits. Here, we comprehensively assessed protein-protein interfaces in macromolecular assemblies derived by cryo-EM. To this end, we developed Protein Interface-score (PI-score), a density-independent machine learning-based metric, trained using the features of protein-protein interfaces in crystal structures. We evaluated 5873 interfaces in 1053 PDB-deposited cryo-EM models (including SARS-CoV-2 complexes), as well as the models submitted to CASP13 cryo-EM targets and the EM model challenge. We further inspected the interfaces associated with low-scores and found that some of those, especially in intermediate-to-low resolution (worse than 4 A) structures, were not captured by density-based assessment scores. A combined score incorporating PI-score and fit-to-density score showed discriminatory power, allowing our method to provide a powerful complementary assessment tool for the ever-increasing number of complexes solved by cryo-EM. Twit Text FOAVip Assessment of protein-protein interfaces in cryo-EM derived assemblies ????Nat Commun http://www.kidney.de/pget.php?&tw=1&pmid=34099703 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=34099703 #FOAvip English Wikipedia <ref>{{Cite pmid|34099703}}</ref> Assessment of protein-protein interfaces in cryo-EM derived assemblies #MMPMID34099703 Malhotra S; Joseph AP; Thiyagalingam J; Topf M Nat Commun 2021[Jun]; 12 (1): 3399 PMID34099703show ga Structures of macromolecular assemblies derived from cryo-EM maps often contain errors that become more abundant with decreasing resolution. Despite efforts in the cryo-EM community to develop metrics for map and atomistic model validation, thus far, no specific scoring metrics have been applied systematically to assess the interface between the assembly subunits. Here, we comprehensively assessed protein-protein interfaces in macromolecular assemblies derived by cryo-EM. To this end, we developed Protein Interface-score (PI-score), a density-independent machine learning-based metric, trained using the features of protein-protein interfaces in crystal structures. We evaluated 5873 interfaces in 1053 PDB-deposited cryo-EM models (including SARS-CoV-2 complexes), as well as the models submitted to CASP13 cryo-EM targets and the EM model challenge. We further inspected the interfaces associated with low-scores and found that some of those, especially in intermediate-to-low resolution (worse than 4 A) structures, were not captured by density-based assessment scores. A combined score incorporating PI-score and fit-to-density score showed discriminatory power, allowing our method to provide a powerful complementary assessment tool for the ever-increasing number of complexes solved by cryo-EM. |*Protein Interaction Domains and Motifs[MESH] |*Protein Interaction Maps[MESH] |Cryoelectron Microscopy/*methods[MESH] |Humans[MESH] |Machine Learning[MESH] |Macromolecular Substances/*chemistry/metabolism/ultrastructure[MESH] |Models, Molecular[MESH] |Neural Networks, Computer[MESH] |Protein Conformation[MESH] |Protein Interaction Mapping/*methods[MESH] |Protein Multimerization[MESH] |Proteins/*chemistry/metabolism/ultrastructure[MESH] |Support Vector Machine[MESH]Assessment of protein-protein interfaces in cryo-EM derived assemblies(epmc).pdf DeepDyve Pubget Overpricing