FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2005423922> ?p ?o ?g. }

• W2005423922 abstract "Single particle electron microscopy (EM) reconstruction has recently become a popular tool to get the three-dimensional (3D) structure of large macromolecular complexes. Compared to X-ray crystallography, it has some unique advantages. First, single particle EM reconstruction does not need to crystallize the protein sample, which is the bottleneck in X-ray crystallography, especially for large macromolecular complexes. Secondly, it does not need large amounts of protein samples. Compared with milligrams of proteins necessary for crystallization, single particle EM reconstruction only needs several micro-liters of protein solution at nano-molar concentrations, using the negative staining EM method. However, despite a few macromolecular assemblies with high symmetry, single particle EM is limited at relatively low resolution (lower than 1 nm resolution) for many specimens especially those without symmetry. This technique is also limited by the size of the molecules under study, i.e. 100 kDa for negatively stained specimens and 300 kDa for frozen-hydrated specimens in general. For a new sample of unknown structure, we generally use a heavy metal solution to embed the molecules by negative staining. The specimen is then examined in a transmission electron microscope to take two-dimensional (2D) micrographs of the molecules. Ideally, the protein molecules have a homogeneous 3D structure but exhibit different orientations in the micrographs. These micrographs are digitized and processed in computers as single particles. Using two-dimensional alignment and classification techniques, homogenous molecules in the same views are clustered into classes. Their averages enhance the signal of the molecule's 2D shapes. After we assign the particles with the proper relative orientation (Euler angles), we will be able to reconstruct the 2D particle images into a 3D virtual volume. In single particle 3D reconstruction, an essential step is to correctly assign the proper orientation of each single particle. There are several methods to assign the view for each particle, including the angular reconstitution(1) and random conical tilt (RCT) method(2). In this protocol, we describe our practice in getting the 3D reconstruction of yeast exosome complex using negative staining EM and RCT. It should be noted that our protocol of electron microscopy and image processing follows the basic principle of RCT but is not the only way to perform the method. We first describe how to embed the protein sample into a layer of Uranyl-Formate with a thickness comparable to the protein size, using a holey carbon grid covered with a layer of continuous thin carbon film. Then the specimen is inserted into a transmission electron microscope to collect untilted (0-degree) and tilted (55-degree) pairs of micrographs that will be used later for processing and obtaining an initial 3D model of the yeast exosome. To this end, we perform RCT and then refine the initial 3D model by using the projection matching refinement method(3)." @default.
• W2005423922 created "2016-06-24" @default.
• W2005423922 creator A5024200175 @default.
• W2005423922 creator A5086264445 @default.
• W2005423922 date "2011-03-28" @default.
• W2005423922 modified "2023-09-26" @default.
• W2005423922 title "Single Particle Electron Microscopy Reconstruction of the Exosome Complex Using the Random Conical Tilt Method" @default.
• W2005423922 cites W1967489089 @default.
• W2005423922 cites W1981124257 @default.
• W2005423922 cites W2006158980 @default.
• W2005423922 cites W2016675163 @default.
• W2005423922 cites W2022507913 @default.
• W2005423922 cites W2048982317 @default.
• W2005423922 cites W2056713455 @default.
• W2005423922 cites W2086848933 @default.
• W2005423922 cites W2093056685 @default.
• W2005423922 cites W2108906526 @default.
• W2005423922 cites W2116888204 @default.
• W2005423922 cites W2132629607 @default.
• W2005423922 doi "https://doi.org/10.3791/2574" @default.
• W2005423922 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/3197315" @default.
• W2005423922 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/21490573" @default.
• W2005423922 hasPublicationYear "2011" @default.
• W2005423922 type Work @default.
• W2005423922 sameAs 2005423922 @default.
• W2005423922 citedByCount "16" @default.
• W2005423922 countsByYear W20054239222012 @default.
• W2005423922 countsByYear W20054239222013 @default.
• W2005423922 countsByYear W20054239222015 @default.
• W2005423922 countsByYear W20054239222016 @default.
• W2005423922 countsByYear W20054239222017 @default.
• W2005423922 countsByYear W20054239222018 @default.
• W2005423922 countsByYear W20054239222019 @default.
• W2005423922 countsByYear W20054239222022 @default.
• W2005423922 crossrefType "journal-article" @default.
• W2005423922 hasAuthorship W2005423922A5024200175 @default.
• W2005423922 hasAuthorship W2005423922A5086264445 @default.
• W2005423922 hasBestOaLocation W20054239222 @default.
• W2005423922 hasConcept C120665830 @default.
• W2005423922 hasConcept C121332964 @default.
• W2005423922 hasConcept C138268822 @default.
• W2005423922 hasConcept C146088050 @default.
• W2005423922 hasConcept C147080431 @default.
• W2005423922 hasConcept C153064111 @default.
• W2005423922 hasConcept C154945302 @default.
• W2005423922 hasConcept C159985019 @default.
• W2005423922 hasConcept C166029249 @default.
• W2005423922 hasConcept C171250308 @default.
• W2005423922 hasConcept C178790620 @default.
• W2005423922 hasConcept C185592680 @default.
• W2005423922 hasConcept C185891055 @default.
• W2005423922 hasConcept C186060115 @default.
• W2005423922 hasConcept C18903297 @default.
• W2005423922 hasConcept C192562407 @default.
• W2005423922 hasConcept C203036418 @default.
• W2005423922 hasConcept C204389451 @default.
• W2005423922 hasConcept C26771246 @default.
• W2005423922 hasConcept C2778517922 @default.
• W2005423922 hasConcept C2779345167 @default.
• W2005423922 hasConcept C3018767501 @default.
• W2005423922 hasConcept C32909587 @default.
• W2005423922 hasConcept C41008148 @default.
• W2005423922 hasConcept C55493867 @default.
• W2005423922 hasConcept C65293305 @default.
• W2005423922 hasConcept C8010536 @default.
• W2005423922 hasConcept C86803240 @default.
• W2005423922 hasConcept C93877712 @default.
• W2005423922 hasConceptScore W2005423922C120665830 @default.
• W2005423922 hasConceptScore W2005423922C121332964 @default.
• W2005423922 hasConceptScore W2005423922C138268822 @default.
• W2005423922 hasConceptScore W2005423922C146088050 @default.
• W2005423922 hasConceptScore W2005423922C147080431 @default.
• W2005423922 hasConceptScore W2005423922C153064111 @default.
• W2005423922 hasConceptScore W2005423922C154945302 @default.
• W2005423922 hasConceptScore W2005423922C159985019 @default.
• W2005423922 hasConceptScore W2005423922C166029249 @default.
• W2005423922 hasConceptScore W2005423922C171250308 @default.
• W2005423922 hasConceptScore W2005423922C178790620 @default.
• W2005423922 hasConceptScore W2005423922C185592680 @default.
• W2005423922 hasConceptScore W2005423922C185891055 @default.
• W2005423922 hasConceptScore W2005423922C186060115 @default.
• W2005423922 hasConceptScore W2005423922C18903297 @default.
• W2005423922 hasConceptScore W2005423922C192562407 @default.
• W2005423922 hasConceptScore W2005423922C203036418 @default.
• W2005423922 hasConceptScore W2005423922C204389451 @default.
• W2005423922 hasConceptScore W2005423922C26771246 @default.
• W2005423922 hasConceptScore W2005423922C2778517922 @default.
• W2005423922 hasConceptScore W2005423922C2779345167 @default.
• W2005423922 hasConceptScore W2005423922C3018767501 @default.
• W2005423922 hasConceptScore W2005423922C32909587 @default.
• W2005423922 hasConceptScore W2005423922C41008148 @default.
• W2005423922 hasConceptScore W2005423922C55493867 @default.
• W2005423922 hasConceptScore W2005423922C65293305 @default.
• W2005423922 hasConceptScore W2005423922C8010536 @default.
• W2005423922 hasConceptScore W2005423922C86803240 @default.
• W2005423922 hasConceptScore W2005423922C93877712 @default.
• W2005423922 hasIssue "49" @default.
• W2005423922 hasLocation W20054239221 @default.
• W2005423922 hasLocation W20054239222 @default.
• W2005423922 hasLocation W20054239223 @default.

• next