4.8 Article

Proton-transporting heliorhodopsins from marine giant viruses

Related references

Note: Only part of the references are listed.
Article Microbiology

Diverse heliorhodopsins detected via functional metagenomics in freshwater Actinobacteria, Chloroflexi and Archaea

Ariel Chazan et al.

Summary: The recently discovered rhodopsin family of heliorhodopsins (HeRs) are found in diverse microbial environments and their functional and biological roles remain unknown. Through experimental and computational screens, 10 readily expressed HeR genes were identified, and they were found to have diverse kinetic characteristics in terms of light absorption and photocycles. Analysis of genes neighboring HeRs suggests a potential involvement in light-induced membrane lipid modifications.

ENVIRONMENTAL MICROBIOLOGY (2022)

Review Microbiology

Microbial Rhodopsins: The Last Two Decades

Andrey Rozenberg et al.

Summary: Microbial rhodopsins are a diverse group of photoreceptive proteins that are present in all domains of cellular life and even encoded in viral genomes. They are classified into two families: type 1 rhodopsins and heliorhodopsins, both having seven transmembrane helices with similar structures but opposite membrane orientation. These rhodopsins are involved in a variety of light-driven energy and sensory transduction processes.

ANNUAL REVIEW OF MICROBIOLOGY, VOL 75, 2021 (2021)

Article Multidisciplinary Sciences

Ion transport activity and optogenetics capability of light-driven Na+-pump KR2

Shoko Hososhima et al.

Summary: KR2 from marine bacteria Krokinobacter eikastus is a light-driven Na+ pumping rhodopsin family member that actively transports Na+ and/or H+ depending on the ionic state. Electrophysiological studies revealed that KR2 exhibits distinct ion transport kinetics for H+ and Na+, with transportation speed dependent on Na+ concentration. Additionally, the M intermediate of KR2's photocycle can be transferred into a dark state without net ion transport.

PLOS ONE (2021)

Letter Cell Biology

Crystal structure of heliorhodopsin 48C12

Yang Lu et al.

CELL RESEARCH (2020)

Article Biochemistry & Molecular Biology

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

Bui Quang Minh et al.

MOLECULAR BIOLOGY AND EVOLUTION (2020)

Article Multidisciplinary Sciences

High-resolution structural insights into the heliorhodopsin family

K. Kovalev et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2020)

Review Chemistry, Multidisciplinary

Structure/Function Study of Photoreceptive Proteins by FTIR Spectroscopy

Hideki Kandori

BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN (2020)

Article Chemistry, Physical

Mechanism of Inward Proton Transport in an Antarctic Microbial Rhodopsin

Andrew Harris et al.

JOURNAL OF PHYSICAL CHEMISTRY B (2020)

Article Biochemistry & Molecular Biology

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

Andrey Rozenberg et al.

CURRENT BIOLOGY (2020)

Article Multidisciplinary Sciences

Viral rhodopsins 1 are an unique family of light-gated cation channels

Dmitrii Zabelskii et al.

NATURE COMMUNICATIONS (2020)

Article Multidisciplinary Sciences

Unifying photocycle model for light adaptation and temporal evolution of cation conductance in channelrhodopsin-2

Jens Kuhne et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

Article Multidisciplinary Sciences

Crystal structure of heliorhodopsin

Wataru Shihoya et al.

NATURE (2019)

Article Multidisciplinary Sciences

One thousand plant transcriptomes and the phylogenomics of green plants

James H. Leebens-Mack et al.

NATURE (2019)

Article Plant Sciences

Light regulation of coccolithophore host-virus interactions

Kimberlee Thamatrakoln et al.

NEW PHYTOLOGIST (2019)

Article Biochemistry & Molecular Biology

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

Sudhir Kumar et al.

MOLECULAR BIOLOGY AND EVOLUTION (2018)

Article Biochemistry & Molecular Biology

The Ocean Gene Atlas: exploring the biogeography of plankton genes online

Emilie Villar et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Multidisciplinary Sciences

A distinct abundant group of microbial rhodopsins discovered using functional metagenomics

Alina Pushkarev et al.

NATURE (2018)

Article Multidisciplinary Sciences

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

Oleg A. Sineshchekov et al.

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

Review Multidisciplinary Sciences

The form and function of channelrhodopsin

Karl Deisseroth et al.

SCIENCE (2017)

Article Multidisciplinary Sciences

Inward H+ pump xenorhodopsin: Mechanism and alternative optogenetic approach

Vitaly Shevchenko et al.

SCIENCE ADVANCES (2017)

Article Biophysics

Molecular properties of a DTD channelrhodopsin from Guillardia theta

Yumeka Yamauchi et al.

BIOPHYSICS AND PHYSICOBIOLOGY (2017)

Article Biochemistry & Molecular Biology

Novel Abundant Oceanic Viruses of Uncultured Marine Group II Euryarchaeota

Alon Philosof et al.

CURRENT BIOLOGY (2017)

Article Multidisciplinary Sciences

A three-dimensional movie of structural changes in bacteriorhodopsin

Eriko Nango et al.

SCIENCE (2016)

Article Multidisciplinary Sciences

A natural light-driven inward proton pump

Keiichi Inoue et al.

NATURE COMMUNICATIONS (2016)

Article Mathematical & Computational Biology

Reefgenomics.Org - a repository for marine genomics data

Yi Jin Liew et al.

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2016)

Article Multidisciplinary Sciences

Structure and function of the global ocean microbiome

Shinichi Sunagawa et al.

SCIENCE (2015)

Review Biochemistry & Molecular Biology

Channelrhodopsin unchained: Structure and mechanism of a light-gated cation channel

Victor A. Lorenz-Fonfria et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2014)

Review Biochemistry & Molecular Biology

The role of protein-bound water molecules in microbial rhodopsins

Klaus Gerwert et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2014)

Review Biochemistry & Molecular Biology

Of ion pumps, sensors and channels - Perspectives on microbial rhodopsins between science and history

Mathias Grote et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2014)

Review Chemistry, Multidisciplinary

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

Oliver P. Ernst et al.

CHEMICAL REVIEWS (2014)

Article Biophysics

Intramolecular Proton Transfer in Channelrhodopsins

Oleg A. Sineshchekov et al.

BIOPHYSICAL JOURNAL (2013)

Article Multidisciplinary Sciences

A light-driven sodium ion pump in marine bacteria

Keiichi Inoue et al.

NATURE COMMUNICATIONS (2013)

Article Virology

Draft Genome Sequence of the Coccolithovirus Emiliania huxleyi Virus 202

Jozef I. Nissimov et al.

JOURNAL OF VIROLOGY (2012)

Article Biochemical Research Methods

Fiji: an open-source platform for biological-image analysis

Johannes Schindelin et al.

NATURE METHODS (2012)

Article Biochemical Research Methods

Proteinortho: Detection of (Co-)orthologs in large-scale analysis

Marcus Lechner et al.

BMC BIOINFORMATICS (2011)

Article Biochemical Research Methods

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

Salvador Capella-Gutierrez et al.

BIOINFORMATICS (2009)

Article Chemistry, Multidisciplinary

Conformational Changes of Channelrhodopsin-2

Ionela Radu et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2009)

Article Multidisciplinary Sciences

Channelrhodopsin-2 is a leaky proton pump

Katrin Feldbauer et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Article Multidisciplinary Sciences

Viral Glycosphingolipids Induce Lytic Infection and Cell Death in Marine Phytoplankton

Assaf Vardi et al.

SCIENCE (2009)

Article Chemistry, Multidisciplinary

Photochromism of Anabaena sensory rhodopsin

Akira Kawanabe et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2007)

Article Multidisciplinary Sciences

Viral activation and recruitment of metacaspases in the unicellular coccolithophore, Emiliania huxleyi

Kay D. Bidle et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Biochemical Research Methods

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

Weizhong Li et al.

BIOINFORMATICS (2006)

Article Neurosciences

Millisecond-timescale, genetically targeted optical control of neural activity

ES Boyden et al.

NATURE NEUROSCIENCE (2005)

Article Biochemical Research Methods

An HMM posterior decoder for sequence feature prediction that includes homology information

L Käll et al.

BIOINFORMATICS (2005)

Article Biochemistry & Molecular Biology

Gene identification in novel eukaryotic genomes by self-training algorithm

A Lomsadze et al.

NUCLEIC ACIDS RESEARCH (2005)

Article Biochemistry & Molecular Biology

MUSCLE: multiple sequence alignment with high accuracy and high throughput

RC Edgar

NUCLEIC ACIDS RESEARCH (2004)

Article Multidisciplinary Sciences

Channelrhodopsin-2, a directly light-gated cation-selective membrane channel

G Nagel et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Article Biochemistry & Molecular Biology

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

K Katoh et al.

NUCLEIC ACIDS RESEARCH (2002)

Article Multidisciplinary Sciences

Molecular mechanism of vectorial proton translocation by bacteriorhodopsin

S Subramaniam et al.

NATURE (2000)

Article Biochemical Research Methods

NOTUNG: A program for dating gene duplications and optimizing gene family trees

K Chen et al.

JOURNAL OF COMPUTATIONAL BIOLOGY (2000)