X-ray solution scattering (SAXS) combined with crystallography and computation: defining accurate macromolecular structures, conformations and assemblies in …

CD Putnam, M Hammel, GL Hura… - Quarterly reviews of …, 2007 - cambridge.org
Crystallography supplies unparalleled detail on structural information critical for mechanistic
analyses; however, it is restricted to describing low energy conformations of …

From words to literature in structural proteomics

A Sali, R Glaeser, T Earnest, W Baumeister - Nature, 2003 - nature.com
Technical advances on several frontiers have expanded the applicability of existing methods
in structural biology and helped close the resolution gaps between them. As a result, we are …

[HTML][HTML] Namdinator–automatic molecular dynamics flexible fitting of structural models into cryo-EM and crystallography experimental maps

RT Kidmose, J Juhl, P Nissen, T Boesen, JL Karlsen… - IUCrJ, 2019 - scripts.iucr.org
Model building into experimental maps is a key element of structural biology, but can be
both time consuming and error prone for low-resolution maps. Here we present Namdinator …

Structures of Cas9 endonucleases reveal RNA-mediated conformational activation

M Jinek, F Jiang, DW Taylor, SH Sternberg, E Kaya… - Science, 2014 - science.org
Introduction Bacteria and archaea defend themselves against invasive DNA using adaptive
immune systems comprising CRISPR (clustered regularly interspaced short palindromic …

[图书][B] Three-dimensional electron microscopy of macromolecular assemblies: visualization of biological molecules in their native state

J Frank - 2006 - books.google.com
Cryoelectron microscopy of biological molecules is among the hottest growth areas in
biophysics and structural biology at present, and Frank is arguably the most distinguished …

Transferrin receptor 1 is a reticulocyte-specific receptor for Plasmodium vivax

J Gruszczyk, U Kanjee, LJ Chan, S Menant, B Malleret… - Science, 2018 - science.org
Plasmodium vivax shows a strict host tropism for reticulocytes. We identified transferrin
receptor 1 (TfR1) as the receptor for P. vivax reticulocyte-binding protein 2b (PvRBP2b). We …

Visualizing density maps with UCSF Chimera

TD Goddard, CC Huang, TE Ferrin - Journal of structural biology, 2007 - Elsevier
We describe methods for interactive visualization and analysis of density maps available in
the UCSF Chimera molecular modeling package. The methods enable segmentation, fitting …

The structural basis of flagellin detection by NAIP5: A strategy to limit pathogen immune evasion

JL Tenthorey, N Haloupek, JR López-Blanco, P Grob… - Science, 2017 - science.org
Robust innate immune detection of rapidly evolving pathogens is critical for host defense.
Nucleotide-binding domain leucine-rich repeat (NLR) proteins function as cytosolic innate …

Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions

GD Pintilie, J Zhang, TD Goddard, W Chiu… - Journal of structural …, 2010 - Elsevier
Cryo-electron microscopy produces 3D density maps of molecular machines, which consist
of various molecular components such as proteins and RNA. Segmentation of individual …

[HTML][HTML] Structure and topography of the synaptic V-ATPase–synaptophysin complex

C Wang, W Jiang, J Leitz, K Yang, L Esquivies, X Wang… - Nature, 2024 - nature.com
Synaptic vesicles are organelles with a precisely defined protein and lipid composition,, yet
the molecular mechanisms for the biogenesis of synaptic vesicles are mainly unknown. Here …