Structural basis for channel conduction in the pump-like channelrhodopsin ChRmine

Early-stage dynamics of chloride ion–pumping rhodopsin revealed by a femtosecond X-ray laser

(2021) Ji-Hye Yun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Crystal structure of schizorhodopsin reveals mechanism of inward proton pumping

(2021) Akimitsu Higuchi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin

(2021) Kazumasa Oda et al.   eLife

Theoretical analysis of optogenetic spiking with ChRmine, bReaChES and CsChrimson-expressing neurons for retinal prostheses

(2021) Himanshu Bansal et al.   Journal of Neural Engineering

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

Highly accurate protein structure prediction for the human proteome

(2021) Kathryn Tunyasuvunakool et al.   NATURE

Partial recovery of visual function in a blind patient after optogenetic therapy

(2021) José-Alain Sahel et al.   NATURE MEDICINE

From microbial membrane proteins to the mysteries of emotion

(2021) Karl Deisseroth   CELL

Cryo-EM single-particle structure refinement and map calculation using Servalcat

(2021) Keitaro Yamashita et al.   Acta Crystallographica Section D-Structural Biology

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

(2020) Jasenko Zivanov et al.   IUCrJ

Conductance Mechanisms of Rapidly Desensitizing Cation Channelrhodopsins from Cryptophyte Algae

(2020) Oleg A. Sineshchekov et al.   mBio

Molecular mechanism of light-driven sodium pumping

(2020) Kirill Kovalev et al.   Nature Communications

Mitigating local over-fitting during single particle reconstruction with SIDESPLITTER

(2020) Kailash Ramlaul et al.   JOURNAL OF STRUCTURAL BIOLOGY

Comprehensive Dual- and Triple-Feature Intersectional Single-Vector Delivery of Diverse Functional Payloads to Cells of Behaving Mammals

(2020) Lief E. Fenno et al.   NEURON

Lateral Gene Transfer of Anion-Conducting Channelrhodopsins between Green Algae and Giant Viruses

(2020) Andrey Rozenberg et al.   CURRENT BIOLOGY

Deep brain optogenetics without intracranial surgery

(2020) Ritchie Chen et al.   NATURE BIOTECHNOLOGY

Design of a light-gated proton channel based on the crystal structure of Coccomyxa rhodopsin

(2019) Roman Fudim et al.   Science Signaling

Rational Engineering of XCaMPs, a Multicolor GECI Suite for In Vivo Imaging of Complex Brain Circuit Dynamics

(2019) Masatoshi Inoue et al.   CELL

Proton uptake mechanism in bacteriorhodopsin captured by serial synchrotron crystallography

(2019) Tobias Weinert et al.   SCIENCE

Cortical layer–specific critical dynamics triggering perception

(2019) James H. Marshel et al.   SCIENCE

MerMAIDs: a family of metagenomically discovered marine anion-conducting and intensely desensitizing channelrhodopsins

(2019) Johannes Oppermann et al.   Nature Communications

Crystal structure of heliorhodopsin

(2019) Wataru Shihoya et al.   NATURE

Ion Channel Properties of a Cation Channelrhodopsin, Gt_CCR4

(2019) Shunta Shigemura et al.   Applied Sciences-Basel

X-ray Crystallographic Structure and Oligomerization of Gloeobacter Rhodopsin

(2019) Takefumi Morizumi et al.   Scientific Reports

High frequency neural spiking and auditory signaling by ultrafast red-shifted optogenetics

(2018) Thomas Mager et al.   Nature Communications

Oligomeric states of microbial rhodopsins determined by high-speed atomic force microscopy and circular dichroic spectroscopy

(2018) Mikihiro Shibata et al.   Scientific Reports

Structural mechanisms of selectivity and gating in anion channelrhodopsins

(2018) Hideaki E. Kato et al.   NATURE

Crystal structure of the natural anion-conducting channelrhodopsin GtACR1

(2018) Yoon Seok Kim et al.   NATURE

Crystal structure of the red light-activated channelrhodopsin Chrimson

(2018) Kazumasa Oda et al.   Nature Communications

X-ray structure analysis of bacteriorhodopsin at 1.3 Å resolution

(2018) Nagayuki Hasegawa et al.   Scientific Reports

New tools for automated high-resolution cryo-EM structure determination in RELION-3

(2018) Jasenko Zivanov et al.   eLife

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

(2018) Jasenko Zivanov et al.   IUCrJ

MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy

(2017) Shawn Q Zheng et al.   NATURE METHODS

Bacteriorhodopsin-like channelrhodopsins: Alternative mechanism for control of cation conductance

(2017) Oleg A. Sineshchekov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

UCSF ChimeraX: Meeting modern challenges in visualization and analysis

(2017) Thomas D. Goddard et al.   PROTEIN SCIENCE

Structural insights into ion conduction by channelrhodopsin 2

(2017) Oleksandr Volkov et al.   SCIENCE

The form and function of channelrhodopsin

(2017) Karl Deisseroth et al.   SCIENCE

Real-space and real-time dynamics of CRISPR-Cas9 visualized by high-speed atomic force microscopy

(2017) Mikihiro Shibata et al.   Nature Communications

Structurally Distinct Cation Channelrhodopsins from Cryptophyte Algae

(2016) Elena G. Govorunova et al.   BIOPHYSICAL JOURNAL

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Simultaneous fast measurement of circuit dynamics at multiple sites across the mammalian brain

(2016) Christina K Kim et al.   NATURE METHODS

Nanodiscs for structural and functional studies of membrane proteins

(2016) Ilia G Denisov et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A three-dimensional movie of structural changes in bacteriorhodopsin

(2016) Eriko Nango et al.   SCIENCE

Nanodiscs for structural and functional studies of membrane proteins

(2016) Ilia G Denisov et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Crystal Structures of the L 1 , L 2 , N, and O States of pharaonis Halorhodopsin

(2015) Tsutomu Kouyama et al.   BIOPHYSICAL JOURNAL

CTFFIND4: Fast and accurate defocus estimation from electron micrographs

(2015) Alexis Rohou et al.   JOURNAL OF STRUCTURAL BIOLOGY

Converting a Light-Driven Proton Pump into a Light-Gated Proton Channel

(2015) Keiichi Inoue et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Projections from neocortex mediate top-down control of memory retrieval

(2015) Priyamvada Rajasethupathy et al.   NATURE

Structural basis for Na+ transport mechanism by a light-driven Na+ pump

(2015) Hideaki E. Kato et al.   NATURE

Optogenetics: 10 years of microbial opsins in neuroscience

(2015) Karl Deisseroth   NATURE NEUROSCIENCE

Structural foundations of optogenetics: Determinants of channelrhodopsin ion selectivity

(2015) Andre Berndt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Expanding the optogenetics toolkit

(2015) A. Berndt et al.   SCIENCE

Atomistic design of microbial opsin-based blue-shifted optogenetics tools

(2015) Hideaki E. Kato et al.   Nature Communications

Conversion of a light-driven proton pump into a light-gated ion channel

(2015) A. Vogt et al.   Scientific Reports

Molecular Dynamics of Channelrhodopsin at the Early Stages of Channel Opening

(2015) Mizuki Takemoto et al.   PLoS One

Independent optical excitation of distinct neural populations

(2014) Nathan C Klapoetke et al.   NATURE METHODS

Deciphering key features in protein structures with the new ENDscript server

(2014) Xavier Robert et al.   NUCLEIC ACIDS RESEARCH

ChR2 Mutants at L132 and T159 with Improved Operational Light Sensitivity for Vision Restoration

(2014) Zhuo-Hua Pan et al.   PLoS One

Crystal Structure of Cruxrhodopsin-3 from Haloarcula vallismortis

(2014) Siu Kit Chan et al.   PLoS One

Structure-Guided Transformation of Channelrhodopsin into a Light-Activated Chloride Channel

(2014) A. Berndt et al.   SCIENCE

Conversion of Channelrhodopsin into a Light-Gated Chloride Channel

(2014) J. Wietek et al.   SCIENCE

Cross-protomer interaction with the photoactive site in oligomeric proteorhodopsin complexes

(2013) Tingting Ran et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests

(2013) Valerio Mariani et al.   BIOINFORMATICS

Microbial and Animal Rhodopsins: Structures, Functions, and Molecular Mechanisms

(2013) Oliver P. Ernst et al.   CHEMICAL REVIEWS

Transient protonation changes in channelrhodopsin-2 and their relevance to channel gating

(2013) V. A. Lorenz-Fonfria et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Crystal structure of deltarhodopsin-3 fromHaloterrigena thermotolerans

(2013) Jin Zhang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A light-driven sodium ion pump in marine bacteria

(2013) Keiichi Inoue et al.   Nature Communications

Structural and spectral characterizations of C1C2 channelrhodopsin and its mutants by molecular simulations

(2012) Motoshi Kamiya et al.   CHEMICAL PHYSICS LETTERS

Color-tuned Channelrhodopsins for Multiwavelength Optogenetics

(2012) Matthias Prigge et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Crystal structure of the channelrhodopsin light-gated cation channel

(2012) Hideaki E. Kato et al.   NATURE

Fabs Enable Single Particle cryoEM Studies of Small Proteins

(2012) Shenping Wu et al.   STRUCTURE

REFMAC5 for the refinement of macromolecular crystal structures

(2011) Garib N. Murshudov et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

The Microbial Opsin Family of Optogenetic Tools

(2011) Feng Zhang et al.   CELL

Ultrafast optogenetic control

(2010) Lisa A Gunaydin et al.   NATURE NEUROSCIENCE

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Crystal Structure of the Light-Driven Chloride Pump Halorhodopsin from Natronomonas pharaonis

(2009) Tsutomu Kouyama et al.   JOURNAL OF MOLECULAR BIOLOGY

Red-shifted optogenetic excitation: a tool for fast neural control derived from Volvox carteri

(2008) Feng Zhang et al.   NATURE NEUROSCIENCE

PROMALS3D: a tool for multiple protein sequence and structure alignments

(2008) Jimin Pei et al.   NUCLEIC ACIDS RESEARCH

Crystallographic structure of xanthorhodopsin, the light-driven proton pump with a dual chromophore

(2008) H. Luecke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural Role of Bacterioruberin in the Trimeric Structure of Archaerhodopsin-2

(2007) Keiko Yoshimura et al.   JOURNAL OF MOLECULAR BIOLOGY