The resulting density map (molmap_VcPilQ.mrc) was resampled to match the pixel size and box size of the VcPilQ cryoEM density map (the output from Relion Refine3D, cryoEM_PilQ.mrc)114. Resampling was performed in UCSF Chimera (command: vop resample <molmap_VcPilQ.mrc model number> on...
This process was iterated multiple times with successive increase in box size and incrementally tighter solvent mask applied during Bayesian polishing until no further improvements were observed, resulting in a final box size of 768 pixels. The final map refined to a global 1.90 Å resolution ...
multiplies coordinates from the particle-picking files (.cbox, .star, .box) in the working folder by the given multiplication factor plot_fsc.py Plots FSC from cisTEM output (.txt file) or relion postprocess_fsc.xml file star_modif.py Excludes/extracts micrographs (after manual selection) from...
5.4 Estimates of alignment accuracy. SNR dependency on masking and box size, investigating alignment errors with synthetic data, effect of alignment accuracy on resolution. Some basic quantitative treatment of alignment errors, a topic that is not discussed much since there is no ground truth alignmen...
Full size image Supplementary movies2and3present the IF to OF transition of bAE1 calculated from the elastic network model driven Brownian Dynamics simulations (eBDIMS) server28. In the eBDIMS method, principal components of conformational change are evaluated on the basis of provided IF and OF ...
Full size image Antibiotic uptake through an f1pIV leaky mutant The antibiotic vancomycin is hydrophilic and bacitracin is amphipathic; both are sufficiently small to pass through the open f1pIV pore (Supplementary Fig. 8). E. coli expressing the previously characterised f1pIV mutant S324G are sens...
fix double make request Sep 10, 2019 LICENSE.txt 解决boxsize = 1200,padding factor = 2 的时候出错的问题 Jun 5, 2019 README.md Update README.md Sep 3, 2019 THUNDERConfig.h.in 解决了cmake3.7以下不能正常编译的问题 Jul 2, 2019
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Full size table CryoEM structures of full-length PN45545 TCR-CD3 and PN45428 TCR-CD3 complexes with HLA-A2/MAGEA4 (230–239) To gain insights into the structural basis of MAGEA4 (230–239) peptide recognition by two distinct TCRs, we determined cryoEM structures of full-length PN45545 ...
Binding of DRD1 to the DR complex induces a drastic coiled-coil movement.aSequence comparison of DRD1 peptide 7 from multiple plant species using T-Coffee server60. Red background marks sequences with strict identity (100%); blue box marks sequences with more than 60% similarity; red text...