作者展示了DEFMap用于包括寨卡病毒在内的多种病毒的cryo-EM density map得到的动力学属性预测结果(如图4)。因为分子动力学模拟很难用于这一类复杂体系,DEFMap可以作为一种替代方法从cryo-EM数据中快速获得分子动力学属性。 ——总结—— Matsumoto等人提出的DEFMap能够直接从cryo-EM中获取隐藏的分子动力学性质。该方法...
cryo‐EM density mapX‐ray crystal structuresFlexible fitting is a computational algorithm to derive a new conformational model that conforms to low-resolution experimental data by transforming a known structure. A common application is against data from cryo-electron microscopy to obtain conformational ...
(机翻双语)Fitting an atomic model in an electron microscopy map with ChimeraX 21 -- 6:19 App (机翻双语)Rapidly fitting a PDB into and EM density prior to MDFF 70 -- 1:57:49 App (机翻双语) GNINA by Dr. David Koes 2.2万 6 5:29 App 巧克力的生产 22 -- 1:18:54 App Kensin...
A density-modification procedure for improving maps from single-particle electron cryogenic microscopy (cryo-EM) is presented. The theoretical basis of the method is identical to that of maximum-likelihood density modification, previously used to improve
Progress in cryo-electron microscopy has provided the potential for large-size protein structure determination. However, the success rate for solving multi-domain proteins remains low because of the difficulty in modelling inter-domain orientations. Here
Marching Cube Based Marker-Controlled Watershed Segmentation for CryoEM Density Map Cryo-electron microscopy (CryoEM) is a very important method for studying the structures of macromolecules. Segmentation is one of the key problems in Cryo... G Shan,J Liu,T Dong,... - IEEE Computer Society 被...
Density map HelixBeta-strandsFilamentStereociliaCryo-electron microscopy (Cryo-EM) and cryo-electron tomography (cryo-ET) produce 3-D density maps of biological molecules at a range of resolution levels. Pattern recognition tools are important in......
Improvement of cryo-EM maps by simultaneous local and non-local deep learning Jiahua He, Tao Li, Sheng-You Huang Nature Communications, June 2023. [paper][code][EMReady] DeepTracer-Denoising: Deep Learning for 3D Electron Density Map Denoising ...
DEFMap: Dynamics Extraction From cryo-em Map This package provides an implementation of a dynamics prediction from a cryo-EM density map. Google Colaboratory version of DEFMap is now released. If you want to try it, please visit ColabDEFMap. Dependency Environment Ubuntu: 16.04 or 18.04 (confi...
Because more and more models are being produced from cryo-EM density maps, validation of the models is becoming important. We propose a method for measuring local agreement between a model and the density map using the central axis of the helix. This method was tested using 19 helices from ...