4.7 Article

CryoEM structures of pseudouridine-free ribosome suggest impacts of chemical modifications on ribosome conformations

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

An open interface in the pre-80S ribosome coordinated by ribosome assembly factors Tsr1 and Dim1 enables temporal regulation of Fap7

Jay Rai et al.

Summary: By determining the structure of an 80S-like ribosome assembly intermediate, researchers revealed how assembly and translation factors cooperate to promote quality control, resolving previously paradoxical data and showing how different proteins facilitate the crucial process of ribosome formation.
Article Biochemistry & Molecular Biology

Regulation of translation by site-specific ribosomal RNA methylation

Martin D. Jansson et al.

Summary: Variation in ribosome composition due to differential 2'-O-methylation of ribosomal RNA can lead to ribosome heterogeneity, impacting translation of select mRNAs and resulting in changes in cellular phenotypes. This suggests a broader mechanism where specific regulation of rRNA modification patterns fine tunes translation.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2021)

Article Cell Biology

Loss of m1acp3Ψ Ribosomal RNA Modification Is a Major Feature of Cancer

Artem Babaian et al.

CELL REPORTS (2020)

Article Biochemical Research Methods

Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix

Dorothee Liebschner et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2019)

Article Biochemical Research Methods

Positive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs

Tristan Bepler et al.

NATURE METHODS (2019)

Article Biochemistry & Molecular Biology

Structure of a eukaryotic cytoplasmic pre-40S ribosomal subunit

Alain Scaiola et al.

EMBO JOURNAL (2018)

Article Multidisciplinary Sciences

Nucleolar fibrillarin is an evolutionarily conserved regulator of bacterial pathogen resistance

Varnesh Tiku et al.

NATURE COMMUNICATIONS (2018)

Review Biochemistry & Molecular Biology

Tuning the ribosome: The influence of rRNA modification on eukaryotic ribosome biogenesis and function

Katherine E. Sloan et al.

RNA BIOLOGY (2017)

Article Multidisciplinary Sciences

Visualization of chemical modifications in the human 80S ribosome structure

S. Kundhavai Natchiar et al.

NATURE (2017)

Letter Biochemical Research Methods

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

Shawn Q. Zheng et al.

NATURE METHODS (2017)

Article Biochemical Research Methods

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination

Ali Punjani et al.

NATURE METHODS (2017)

Article Biochemistry & Molecular Biology

Random pseuoduridylation in vivo reveals critical region of Escherichia coli 23S rRNA for ribosome assembly

Margus Leppik et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Biochemistry & Molecular Biology

The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity

Deniz Simsek et al.

Review Chemistry, Multidisciplinary

Post-transcriptional Modifications Modulate rRNA Structure and Ligand Interactions

Jun Jiang et al.

ACCOUNTS OF CHEMICAL RESEARCH (2016)

Article Biochemistry & Molecular Biology

Whither Ribosome Structure and Dynamics Research? (A Perspective)

Joachim Frank

JOURNAL OF MOLECULAR BIOLOGY (2016)

Article Biochemistry & Molecular Biology

Gctf: Real-time CTF determination and correction

Kai Zhang

JOURNAL OF STRUCTURAL BIOLOGY (2016)

Review Cell Biology

Structural insights into ribosome translocation

Clarence Ling et al.

WILEY INTERDISCIPLINARY REVIEWS-RNA (2016)

Article Biochemistry & Molecular Biology

Structural Snapshots of Actively Translating Human Ribosomes

Elmar Behrmann et al.

Article Biochemistry & Molecular Biology

Structural insights into the role of rRNA modifications in protein synthesis and ribosome assembly

Yury S. Polikanov et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2015)

Review Biochemistry & Molecular Biology

'View From A Bricge': A New Perspective on Eukaryotic rRNA Base Modification

Sunny Sharma et al.

TRENDS IN BIOCHEMICAL SCIENCES (2015)

Article Biochemistry & Molecular Biology

Structural insights into the role of rRNA modifications in protein synthesis and ribosome assembly

Yury S. Polikanov et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2015)

Article Multidisciplinary Sciences

Structural basis for the inhibition of the eukaryotic ribosome

Nicolas Garreau de Loubresse et al.

NATURE (2014)

Article Biochemical Research Methods

Quantifying the local resolution of cryo-EMEM density maps

Alp Kucukelbir et al.

NATURE METHODS (2014)

Article Biochemistry & Molecular Biology

Eukaryotic rpL10 drives ribosomal rotation

Sergey O. Sulima et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Biochemistry & Molecular Biology

RNA-guided isomerization of uridine to pseudouridine-pseudouridylation

Yi-Tao Yu et al.

RNA BIOLOGY (2014)

Article Biochemistry & Molecular Biology

A cluster of methylations in the domain IV of 25S rRNA is required for ribosome stability

Andriana Gigova et al.

Article Biochemistry & Molecular Biology

Structures of Yeast 80S Ribosome-tRNA Complexes in the Rotated and Nonrotated Conformations

Egor Svidritskiy et al.

STRUCTURE (2014)

Review Biophysics

How Should We Think About the Ribosome?

Peter B. Moore

ANNUAL REVIEW OF BIOPHYSICS, VOL 41 (2012)

Review Cell Biology

The box C/D and H/ACA snoRNPs: key players in the modification, processing and the dynamic folding of ribosomal RNA

Nicholas J. Watkins et al.

WILEY INTERDISCIPLINARY REVIEWS-RNA (2012)

Review Biophysics

Structures of ribonucleoprotein particle modification enzymes

Bo Liang et al.

QUARTERLY REVIEWS OF BIOPHYSICS (2011)

Article Multidisciplinary Sciences

The Structure of the Eukaryotic Ribosome at 3.0 Å Resolution

Adam Ben-Shem et al.

SCIENCE (2011)

Article Biochemical Research Methods

Features and development of Coot

P. Emsley et al.

ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY (2010)

Review Biochemistry & Molecular Biology

Structure and Dynamics of a Processive Brownian Motor: The Translating Ribosome

Joachim Frank et al.

ANNUAL REVIEW OF BIOCHEMISTRY, VOL 79 (2010)

Article Biochemistry & Molecular Biology

Deregulation of oncogene-induced senescence and p53 translational control in X-linked dyskeratosis congenita

Cristian Bellodi et al.

EMBO JOURNAL (2010)

Article Multidisciplinary Sciences

Crystal Structure of the Eukaryotic Ribosome

Adam Ben-Shem et al.

SCIENCE (2010)

Review Multidisciplinary Sciences

What recent ribosome structures have revealed about the mechanism of translation

T. Martin Schmeing et al.

NATURE (2009)

Article Biochemistry & Molecular Biology

Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA

Bo Liang et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2009)

Review Biochemistry & Molecular Biology

Structural dynamics of the ribosome

Andrei Korostelev et al.

CURRENT OPINION IN CHEMICAL BIOLOGY (2008)

Article Biochemistry & Molecular Biology

Ribosome performance is enhanced by a rich cluster of pseudouridines in the A-site finger region of the large subunit

Dorota Piekna-Przybylska et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2008)

Article Biochemistry & Molecular Biology

Spontaneous intersubunit rotation in single ribosomes

Peter V. Cornish et al.

MOLECULAR CELL (2008)

Article Biochemistry & Molecular Biology

Mis-targeted methylation in rRNA can severely impair ribosome synthesis and activity

Ben Liu et al.

RNA BIOLOGY (2008)

Article Biochemistry & Molecular Biology

New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA

Dorota Piekna-Przybylska et al.

Article Multidisciplinary Sciences

Optimization of Ribosome Structure and Function by rRNA Base Modification

Jennifer L. Baxter-Roshek et al.

PLOS ONE (2007)

Article Biochemistry & Molecular Biology

Automated molecular microscopy: The new Leginon system

C Suloway et al.

JOURNAL OF STRUCTURAL BIOLOGY (2005)

Article Biochemistry & Molecular Biology

Structural and thermodynamic evidence for a stabilizing role of Nop5p in S-adenosyl-L-methionine binding to fibrillarin

M Aittaleb et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2004)

Article Chemistry, Multidisciplinary

The pseudouridine synthases: Revisiting a mechanism that seemed settled

CJ Spedaliere et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2004)

Article Chemistry, Multidisciplinary

UCSF chimera - A visualization system for exploratory research and analysis

EF Pettersen et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2004)

Review Biochemistry & Molecular Biology

RNA-guided nucleotide modification of ribosomal and other RNAs

WA Decatur et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2003)

Article Biochemistry & Molecular Biology

Active site in RrmJ, a heat shock-induced methyltransferase

J Hager et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2002)

Article Multidisciplinary Sciences

A large nucleolar U3 ribonucleoprotein required for 18S ribosomal RNA biogenesis

F Dragon et al.

NATURE (2002)

Article Cell Biology

Making ribosomes

A Fatica et al.

CURRENT OPINION IN CELL BIOLOGY (2002)

Article Cell Biology

Glucose depletion rapidly inhibits translation initiation in yeast

MP Ashe et al.

MOLECULAR BIOLOGY OF THE CELL (2000)