Structure and regulation of the nuclear exosome targeting complex guides RNA substrates to the exosome

The human SKI complex regulates channeling of ribosome-bound RNA to the exosome via an intrinsic gatekeeping mechanism

(2022) Alexander Kögel et al.   MOLECULAR CELL

Mtr4 RNA helicase structures and interactions

(2021) Keith J. Olsen et al.   BIOLOGICAL CHEMISTRY

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

Cryo-EM reconstructions of inhibitor-bound SMG1 kinase reveal an autoinhibitory state dependent on SMG8

(2021) Lukas M Langer et al.   eLife

Improvement of cryo-EM maps by density modification

(2020) Thomas C. Terwilliger et al.   NATURE METHODS

NRDE2 negatively regulates exosome functions by inhibiting MTR4 recruitment and exosome interaction

(2019) Jianshu Wang et al.   GENES & DEVELOPMENT

Software tools for automated transmission electron microscopy

(2019) Martin Schorb et al.   NATURE METHODS

The MTR4 helicase recruits nuclear adaptors of the human RNA exosome using distinct arch-interacting motifs

(2019) Mahesh Lingaraju et al.   Nature Communications

ZCCHC8, the nuclear exosome targeting component, is mutated in familial pulmonary fibrosis and is required for telomerase RNA maturation

(2019) Dustin L. Gable et al.   GENES & DEVELOPMENT

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

(2019) Tristan Bepler et al.   NATURE METHODS

Nuclear sorting of RNA

(2019) William Garland et al.   Wiley Interdisciplinary Reviews-RNA

Helicase-Dependent RNA Decay Illuminated by a Cryo-EM Structure of a Human Nuclear RNA Exosome-MTR4 Complex

(2018) Eva-Maria Weick et al.   CELL

Diminished nuclear RNA decay upon Salmonella infection upregulates antibacterial noncoding RNAs

(2018) Katsutoshi Imamura et al.   EMBO JOURNAL

Controlling nuclear RNA levels

(2018) Manfred Schmid et al.   NATURE REVIEWS GENETICS

Structural basis for MTR4–ZCCHC8 interactions that stimulate the MTR4 helicase in the nuclear exosome-targeting complex

(2018) M. Rhyan Puno et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of the nuclear exosome captured on a maturing preribosome

(2018) Jan Michael Schuller et al.   SCIENCE

Characterizing ZC3H18, a Multi-domain Protein at the Interface of RNA Production and Destruction Decisions

(2018) Kinga Winczura et al.   Cell Reports

Distinct and evolutionary conserved structural features of the human nuclear exosome complex

(2018) Piotr Gerlach et al.   eLife

New tools for the analysis and validation of cryo-EM maps and atomic models

(2018) Pavel V. Afonine et al.   Acta Crystallographica Section D-Structural Biology

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

(2018) Jasenko Zivanov et al.   eLife

Targeting RNA for processing or destruction by the eukaryotic RNA exosome and its cofactors

(2017) John C. Zinder et al.   GENES & DEVELOPMENT

Focus: The interface between data collection and data processing in cryo-EM

(2017) Nikhil Biyani et al.   JOURNAL OF STRUCTURAL BIOLOGY

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

(2017) Shawn Q Zheng et al.   NATURE METHODS

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination

(2017) Ali Punjani et al.   NATURE METHODS

Addressing preferred specimen orientation in single-particle cryo-EM through tilting

(2017) Yong Zi Tan et al.   NATURE METHODS

UCSF ChimeraX: Meeting modern challenges in visualization and analysis

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

Structural insights into the interaction of the nuclear exosome helicase Mtr4 with the preribosomal protein Nop53

(2017) Sebastian Falk et al.   RNA

Mpp6 Incorporation in the Nuclear Exosome Contributes to RNA Channeling through the Mtr4 Helicase

(2017) Sebastian Falk et al.   Cell Reports

Structure and reconstitution of yeast Mpp6-nuclear exosome complexes reveals that Mpp6 stimulates RNA decay and recruits the Mtr4 helicase

(2017) Elizabeth V Wasmuth et al.   eLife

Gctf: Real-time CTF determination and correction

(2016) Kai Zhang   JOURNAL OF STRUCTURAL BIOLOGY

Nuclear RNA Exosome at 3.1 Å Reveals Substrate Specificities, RNA Paths, and Allosteric Inhibition of Rrp44/Dis3

(2016) John C. Zinder et al.   MOLECULAR CELL

Identification of a Nuclear Exosome Decay Pathway for Processed Transcripts

(2016) Nicola Meola et al.   MOLECULAR CELL

The regulation and functions of the nuclear RNA exosome complex

(2016) Cornelia Kilchert et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Structure of the RBM7–ZCCHC8 core of the NEXT complex reveals connections to splicing factors

(2016) Sebastian Falk et al.   Nature Communications

The Exosome Is Recruited to RNA Substrates through Specific Adaptor Proteins

(2015) Matthias Thoms et al.   CELL

Landscape of Intertwined Associations in Multi-Domain Homo-Oligomeric Proteins

(2015) Stephen S. MacKinnon et al.   JOURNAL OF MOLECULAR BIOLOGY

CTFFIND4: Fast and accurate defocus estimation from electron micrographs

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

RNA degradation paths in a 12-subunit nuclear exosome complex

(2015) Debora Lika Makino et al.   NATURE

RBM7 subunit of the NEXT complex binds U-rich sequences and targets 3′-end extended forms of snRNAs

(2015) Dominika Hrossova et al.   NUCLEIC ACIDS RESEARCH

The Human Nuclear Exosome Targeting Complex Is Loaded onto Newly Synthesized RNA to Direct Early Ribonucleolysis

(2015) Michal Lubas et al.   Cell Reports

Human Telomerase RNA Processing and Quality Control

(2015) Chi-Kang Tseng et al.   Cell Reports

The exosome‐binding factors Rrp6 and Rrp47 form a composite surface for recruiting the Mtr4 helicase

(2014) Benjamin Schuch et al.   EMBO JOURNAL

The Molecular Architecture of the TRAMP Complex Reveals the Organization and Interplay of Its Two Catalytic Activities

(2014) Sebastian Falk et al.   MOLECULAR CELL

RNA decay machines: The exosome

(2013) Aleksander Chlebowski et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Crystal structure of an RNA-bound 11-subunit eukaryotic exosome complex

(2013) Debora Lika Makino et al.   NATURE

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

Exo- and Endoribonucleolytic Activities of Yeast Cytoplasmic and Nuclear RNA Exosomes Are Dependent on the Noncatalytic Core and Central Channel

(2012) Elizabeth V. Wasmuth et al.   MOLECULAR CELL

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Interaction Profiling Identifies the Human Nuclear Exosome Targeting Complex

(2011) Michal Lubas et al.   MOLECULAR CELL

Features and development ofCoot

(2010) P. Emsley et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

The human core exosome interacts with differentially localized processive RNases: hDIS3 and hDIS3L

(2010) Rafal Tomecki et al.   EMBO JOURNAL

The crystal structure of Mtr4 reveals a novel arch domain required for rRNA processing

(2010) Ryan N Jackson et al.   EMBO JOURNAL

Structural analysis reveals the characteristic features of Mtr4, a DExH helicase involved in nuclear RNA processing and surveillance

(2010) J. R. Weir et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Zinc- and sequence-dependent binding to nucleic acids by the N-terminal zinc finger of the HIV-1 nucleocapsid protein: NMR structure of the complex with the Psi-site analog, dACGCC

(2010) Terri L. South et al.   PROTEIN SCIENCE

The Yeast Exosome Functions as a Macromolecular Cage to Channel RNA Substrates for Degradation

(2009) Fabien Bonneau et al.   CELL

An auxin-based degron system for the rapid depletion of proteins in nonplant cells

(2009) Kohei Nishimura et al.   NATURE METHODS