4.8 Article

MINSTED nanoscopy enters the Ångstrom localization range

Related references

Note: Only part of the references are listed.
Article Biochemical Research Methods

ColabFold: making protein folding accessible to all

Milot Mirdita et al.

Summary: ColabFold combines fast homology search and optimized model utilization to offer accelerated prediction of protein structures and complexes, with a processing speed that is 40-60 times faster. It serves as a free and accessible platform for protein folding, capable of predicting close to 1,000 structures per day.

NATURE METHODS (2022)

Editorial Material Neurosciences

Colocalization of different neurotransmitter transporters on synaptic vesicles is sparse except for VGLUT1 and ZnT3

Neha Upmanyu et al.

Summary: Vesicular transporters determine the type of neurotransmitter stored and released by synaptic vesicles. Most vesicles contain only one type of transporter, while a small percentage have dual transporters. The colocalization of transporters influences the content and release of vesicles.

NEURON (2022)

Article Multidisciplinary Sciences

AI-based structure prediction empowers integrative structural analysis of human nuclear pores

Shyamal Mosalaganti et al.

Summary: This study combines artificial intelligence-based structure prediction with in situ structural biology to reveal the structure and function of the human nuclear pore complex (NPC) scaffold. The findings demonstrate the importance of linker nucleoporins in establishing the higher-order structure of the scaffold and suggest that it widens the central pore rather than stabilizing the fusion of the inner and outer nuclear membranes.

SCIENCE (2022)

Article Cell Biology

ZC3HC1 is a structural element of the nuclear basket effecting interlinkage of TPR polypeptides

Philip Gunkel et al.

Summary: In this study, ZC3HC1 is identified as the second structural element of the nuclear basket (NB) and is shown to recruit TPR subpopulations to the NB and link them to already anchored TPR polypeptides. The rapid elimination of ZC3HC1 leads to detachment of the ZC3HC1-appended TPR polypeptides from the NB, highlighting the role of ZC3HC1 as a natural structural element. Furthermore, ZC3HC1 can keep TPR polypeptides positioned and linked to each other even at sites remote from the NB.

MOLECULAR BIOLOGY OF THE CELL (2022)

Article Multidisciplinary Sciences

The cellular environment shapes the nuclear pore complex architecture

Anthony P. Schuller et al.

Summary: Nuclear pore complexes (NPCs) form large conduits for cargo transport between the nucleus and cytoplasm, composed of various nucleoporins distributed in inner, cytoplasmic, and nucleoplasmic rings. Cryo-electron tomography on DLD-1 cells revealed structural differences in the human NPC compared to previous models, showing wider inner ring, increased central channel volume, and reorganized rings. The study highlights the flexibility of NPC and its dependence on the cellular environment for maintaining structural integrity.

NATURE (2021)

Article Optics

MINSTED fluorescence localization and nanoscopy

Michael Weber et al.

Summary: MINSTED is a fluorescence localization and super-resolution microscopy concept based on STED, offering high spatial precision and resolution while reducing fluorophore bleaching. By conducting 200-1,000 detections per fluorophore, a localization precision of 1-3 nm can be achieved, resulting in a significant improvement in far-field microscopy resolution over the diffraction limit.

NATURE PHOTONICS (2021)

Article Multidisciplinary Sciences

Highly accurate protein structure prediction with AlphaFold

John Jumper et al.

Summary: Proteins are essential for life, and accurate prediction of their structures is a crucial research problem. Current experimental methods are time-consuming, highlighting the need for accurate computational approaches to address the gap in structural coverage. Despite recent progress, existing methods fall short of atomic accuracy in protein structure prediction.

NATURE (2021)

Article Multidisciplinary Sciences

Highly accurate protein structure prediction for the human proteome

Kathryn Tunyasuvunakool et al.

Summary: Using the AlphaFold method, the structural coverage of the proteome has been significantly expanded, covering 98.5% of human proteins with 58% of residues having confident predictions and 36% having very high confidence. Introducing new metrics to interpret the dataset and identify disordered regions, this study aims to provide high-quality predictions for generating biological hypotheses.

NATURE (2021)

Article Cell Biology

ZC3HC1 Is a Novel Inherent Component of the Nuclear Basket, Resident in a State of Reciprocal Dependence with TPR

Philip Gunkel et al.

Summary: The nuclear basket (NB) scaffold is a fibrillar structure composed of coiled-coil dominated protein TPR, to which other proteins can bind without affecting structural integrity. The discovery of vertebrate protein ZC3HC1 as a new component of the NB expands its functional repertoire, affecting different types of cell nuclear envelopes (NE). This suggests a more complex NB structure than previously thought.

CELLS (2021)

Article Biochemical Research Methods

Nuclear pores as versatile reference standards for quantitative superresolution microscopy

Jervis Vermal Thevathasan et al.

NATURE METHODS (2019)

Article Biochemistry & Molecular Biology

UCSF ChimeraX: Meeting modern challenges in visualization and analysis

Thomas D. Goddard et al.

PROTEIN SCIENCE (2018)

Article Biochemical Research Methods

Template-free 2D particle fusion in localization microscopy

Hamidreza Heydarian et al.

NATURE METHODS (2018)

Article Multidisciplinary Sciences

Nanometer resolution imaging and tracking of fluorescent molecules with minimal photon fluxes

Francisco Balzarotti et al.

SCIENCE (2017)

Article Biochemical Research Methods

Cryogenic optical localization provides 3D protein structure data with Angstrom resolution

Siegfried Weisenburger et al.

NATURE METHODS (2017)

Article Biochemical Research Methods

Super-resolution microscopy with DNA-PAINT

Joerg Schnitzbauer et al.

NATURE PROTOCOLS (2017)

Article Multidisciplinary Sciences

Strong signal increase in STED fluorescence microscopy by imaging regions of subdiffraction extent

Fabian Goettfert et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)

Article Biochemical Research Methods

SR-Tesseler: a method to segment and quantify localization-based super-resolution microscopy data

Florian Levet et al.

NATURE METHODS (2015)

Letter Biochemical Research Methods

E-CRISP: fast CRISPR target site identification

Florian Heigwer et al.

NATURE METHODS (2014)

Article Biochemical Research Methods

Optimal lens design and use in laser-scanning microscopy

Adrian Negrean et al.

BIOMEDICAL OPTICS EXPRESS (2014)

Article Biochemistry & Molecular Biology

Integrated Structural Analysis of the Human Nuclear Pore Complex Scaffold

Khanh Huy Bui et al.

Article Biochemistry & Molecular Biology

Double Nicking by RNA-Guided CRISPR Cas9 for Enhanced Genome Editing Specificity

F. Ann Ran et al.

Article Biochemical Research Methods

Genome engineering using the CRISPR-Cas9 system

F. Ann Ran et al.

NATURE PROTOCOLS (2013)

Article Optics

STED with wavelengths closer to the emission maximum

Giuseppe Vicidomini et al.

OPTICS EXPRESS (2012)

Article Chemistry, Multidisciplinary

A reducing and oxidizing system minimizes photobleaching and blinking of fluorescent dyes

Jan Vogelsang et al.

ANGEWANDTE CHEMIE-INTERNATIONAL EDITION (2008)

Article Multidisciplinary Sciences

Wide-field subdiffraction imaging by accumulated binding of diffusing probes

Alexey Sharonov et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Biochemical Research Methods

Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM)

Michael J. Rust et al.

NATURE METHODS (2006)

Article Biotechnology & Applied Microbiology

Engineering and characterization of a superfolder green fluorescent protein

JD Pedelacq et al.

NATURE BIOTECHNOLOGY (2006)

Article Chemistry, Multidisciplinary

UCSF chimera - A visualization system for exploratory research and analysis

EF Pettersen et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2004)