T. Nakane

Data-driven regularisation lowers the size barrier of cryo-EM structure determination

This paper introduces a deep-learning-based regularisation method for cryo-EM that improves reconstruction quality, enabling structure determination of smaller macromolecules with low signal-to-noise ratios.

Three-dimensional motions of GroEL during substrate protein recognition

The paper uses cryo-EM to study the 3D motions of GroEL during substrate recognition, revealing asymmetric binding and conformational dynamics at near-atomic resolution.

New tools for automated cryo-EM single-particle analysis in RELION-4.0

The paper introduces new tools in RELION-4.0 for automated cryo-EM single-particle analysis, including a gradient descent algorithm, a neural network for 2D class selection, and a job framework with metadata linking.

Single-particle cryo-EM at atomic resolution

This paper demonstrates achieving atomic resolution cryo-EM structures for membrane proteins and apo-ferritin using advanced hardware, enabling detailed structural analysis and hydrogen bonding visualization.

Structures, conformations and distributions of SARS-CoV-2 spike protein trimers on intact virions

This study uses cryo-electron microscopy to determine the structure, conformational flexibility, and distribution of SARS-CoV-2 spike protein trimers on intact virions.

Estimation of high-order aberrations and anisotropic magnification from cryo-EM datasets in RELION-3.1

The paper introduces methods to estimate high-order aberrations and anisotropic magnification in cryo-EM data, improving 3D reconstruction resolution when applicable, and implements them in RELION-3.1.

Comparing serial X-ray crystallography and microcrystal electron diffraction (MicroED) as methods for routine structure determination from small macromolecular crystals

This study compares serial X-ray crystallography and MicroED for determining structures from small macromolecular crystals, highlighting their strengths and challenges.

Cryo-EM structure of the human L-type amino acid transporter 1 in complex with glycoprotein CD98hc

This paper reports the cryo-EM structure of the human LAT1-CD98hc heterodimer, revealing its architecture and interactions, and maps disease mutations to explain congenital disorders.

RELION-3: new tools for automated high-resolution cryo-EM structure determination

RELION-3 introduces new tools for automated high-resolution cryo-EM structure determination, improving resolution through enhanced processing methods and hardware flexibility.

A Bayesian approach to beam-induced motion correction in cryo-EM single-particle analysis

The paper introduces a Bayesian method for correcting beam-induced motion in cryo-EM single-particle analysis, showing improved performance over existing methods in RELION-3.

Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION

The paper introduces a new cryo-EM single-particle analysis tool called multi-body refinement to model flexible macromolecular complexes and generate reconstructions and motion movies.

Atomic resolution structure of serine protease proteinase K at ambient temperature

The paper reports an atomic resolution structure of proteinase K at ambient temperature using serial femtosecond crystallography, revealing hydrogen atoms, water molecules, and side-chain conformations.