Biochemical and structural insights into SARS-CoV-2 polyprotein processing by Mpro

Hydrogen/Deuterium Exchange Mass Spectrometry for Weak Binders

(2022) Yoshitomo Hamuro et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Structural basis for replicase polyprotein cleavage and substrate specificity of main protease from SARS-CoV-2

(2022) Yao Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An extended conformation of SARS-CoV-2 main protease reveals allosteric targets

(2022) Zengchao Sun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Defining the substrate envelope of SARS-CoV-2 main protease to predict and avoid drug resistance

(2022) Ala M. Shaqra et al.   Nature Communications

Hallmarks of Alpha- and Betacoronavirus non-structural protein 7+8 complexes

(2021) Boris Krichel et al.   Science Advances

X-ray screening identifies active site and allosteric inhibitors of SARS-CoV-2 main protease

(2021) Sebastian Günther et al.   SCIENCE

Remdesivir for the Treatment of Covid-19: The Value of Biochemical Studies

(2021) Götte Matthias   Current Opinion in Virology

A Crystallographic Snapshot of SARS-CoV-2 Main Protease Maturation Process

(2021) G.D. Noske et al.   JOURNAL OF MOLECULAR BIOLOGY

Revealing the Structural Plasticity of SARS-CoV-2 nsp7 and nsp8 Using Structural Proteomics

(2021) Valentine V. Courouble et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Masitinib is a broad coronavirus 3CL inhibitor that blocks replication of SARS-CoV-2

(2021) Nir Drayman et al.   SCIENCE

Characterising proteolysis during SARS-CoV-2 infection identifies viral cleavage sites and cellular targets with therapeutic potential

(2021) Bjoern Meyer et al.   Nature Communications

Bispecific repurposed medicines targeting the viral and immunological arms of COVID-19

(2021) Martin A. Redhead et al.   Scientific Reports

Structure and function of SARS-CoV-2 polymerase

(2021) Hauke S Hillen   Current Opinion in Virology

Recognition of Divergent Viral Substrates by the SARS-CoV-2 Main Protease

(2021) Elizabeth A. MacDonald et al.   ACS Infectious Diseases

Modeling the native ensemble of PhuS using enhanced sampling MD and HDX-ensemble reweighting

(2021) Kyle C. Kihn et al.   BIOPHYSICAL JOURNAL

An oral SARS-CoV-2 M pro inhibitor clinical candidate for the treatment of COVID-19

(2021) Dafydd R. Owen et al.   SCIENCE

Processing of the SARS-CoV pp1a/ab nsp7-10 region

(2020) Boris Krichel et al.   BIOCHEMICAL JOURNAL

Interpretation of HDX Data by Maximum-Entropy Reweighting of Simulated Structural Ensembles

(2020) Richard T. Bradshaw et al.   BIOPHYSICAL JOURNAL

A Novel Coronavirus from Patients with Pneumonia in China, 2019

(2020) Na Zhu et al.   NEW ENGLAND JOURNAL OF MEDICINE

Expanding our understanding of the role polyprotein conformation plays in the coronavirus life cycle

(2020) Samantha Gildenhuys   BIOCHEMICAL JOURNAL

Structure of replicating SARS-CoV-2 polymerase

(2020) Hauke S. Hillen et al.   NATURE

A SARS-CoV-2 protein interaction map reveals targets for drug repurposing

(2020) David E. Gordon et al.   NATURE

Structure of Mpro from SARS-CoV-2 and discovery of its inhibitors

(2020) Zhenming Jin et al.   NATURE

Crystal structure of SARS-CoV-2 main protease provides a basis for design of improved α-ketoamide inhibitors

(2020) Linlin Zhang et al.   SCIENCE

An orally bioavailable broad-spectrum antiviral inhibits SARS-CoV-2 in human airway epithelial cell cultures and multiple coronaviruses in mice

(2020) Timothy P. Sheahan et al.   Science Translational Medicine

A molecular pore spans the double membrane of the coronavirus replication organelle

(2020) Georg Wolff et al.   SCIENCE

Of Mice and Men: The Coronavirus MHV and Mouse Models as a Translational Approach to Understand SARS-CoV-2

(2020) Robert W. Körner et al.   Viruses-Basel

Structural plasticity of SARS-CoV-2 3CL Mpro active site cavity revealed by room temperature X-ray crystallography

(2020) Daniel W. Kneller et al.   Nature Communications

Crystal Structure of the SARS-CoV-2 Non-structural Protein 9, Nsp9

(2020) Dene R. Littler et al.   iScience

Allosteric Inhibition of the SARS‐CoV‐2 Main Protease: Insights from Mass Spectrometry Based Assays

(2020) Tarick J. El‐Baba et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Crystallographic and electrophilic fragment screening of the SARS-CoV-2 main protease

(2020) Alice Douangamath et al.   Nature Communications

Room-temperature X-ray crystallography reveals the oxidation and reactivity of cysteine residues in SARS-CoV-2 3CL Mpro: insights into enzyme mechanism and drug design

(2020) Daniel W. Kneller et al.   IUCrJ

Polyprotein processing and intermolecular interactions within the viral replication complex spatially and temporally control norovirus protease activity

(2019) Edward Emmott et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

HIV-1 Reverse Transcriptase: A Metamorphic Protein with Three Stable States

(2019) Robert E. London   STRUCTURE

The crystal structure of main protease from mouse hepatitis virus A59 in complex with an inhibitor

(2019) Wen Cui et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Unfolding the Mysteries of Protein Metamorphosis

(2018) Acacia F. Dishman et al.   ACS Chemical Biology

Quantitative cross-linking/mass spectrometry to elucidate structural changes in proteins and their complexes

(2018) Zhuo A. Chen et al.   Nature Protocols

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

MicroED structures of HIV-1 Gag CTD-SP1 reveal binding interactions with the maturation inhibitor bevirimat

(2018) Michael D. Purdy et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SAXSMoW 2.0: Online calculator of the molecular weight of proteins in dilute solution from experimental SAXS data measured on a relative scale

(2018) Vassili Piiadov et al.   PROTEIN SCIENCE

HDX-MS reveals dysregulated checkpoints that compromise discrimination against self RNA during RIG-I mediated autoimmunity

(2018) Jie Zheng et al.   Nature Communications

Conformational dynamics of 1-deoxy-d-xylulose 5-phosphate synthase on ligand binding revealed by H/D exchange MS

(2017) Jieyu Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Expression and Cleavage of Middle East Respiratory Syndrome Coronavirus nsp3-4 Polyprotein Induce the Formation of Double-Membrane Vesicles That Mimic Those Associated with Coronaviral RNA Replication

(2017) Diede Oudshoorn et al.   mBio

HDX reveals the conformational dynamics of DNA sequence specific VDR co-activator interactions

(2017) Jie Zheng et al.   Nature Communications

Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification

(2017) Fan Liu et al.   Nature Communications

Quenching protein dynamics interferes with HIV capsid maturation

(2017) Mingzhang Wang et al.   Nature Communications

BioXTAS RAW: improvements to a free open-source program for small-angle X-ray scattering data reduction and analysis

(2017) Jesse Bennett Hopkins et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

ATSAS 2.8: a comprehensive data analysis suite for small-angle scattering from macromolecular solutions

(2017) D. Franke et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

Domain Movements upon Activation of Phenylalanine Hydroxylase Characterized by Crystallography and Chromatography-Coupled Small-Angle X-ray Scattering

(2016) Steve P. Meisburger et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Improved radiation dose efficiency in solution SAXS using a sheath flow sample environment

(2016) Nigel Kirby et al.   Acta Crystallographica Section D-Structural Biology

xiNET: Cross-link Network Maps With Residue Resolution

(2015) Colin W. Combe et al.   MOLECULAR & CELLULAR PROTEOMICS

Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry

(2015) Fan Liu et al.   NATURE METHODS

Correlation Map, a goodness-of-fit test for one-dimensional X-ray scattering spectra

(2015) Daniel Franke et al.   NATURE METHODS

I-TASSER server: new development for protein structure and function predictions

(2015) Jianyi Yang et al.   NUCLEIC ACIDS RESEARCH

MSstats: an R package for statistical analysis of quantitative mass spectrometry-based proteomic experiments

(2014) Meena Choi et al.   BIOINFORMATICS

Mapping Residual Structure in Intrinsically Disordered Proteins at Residue Resolution Using Millisecond Hydrogen/Deuterium Exchange and Residue Averaging

(2014) Theodore R. Keppel et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Accurate assessment of mass, models and resolution by small-angle scattering

(2013) Robert P. Rambo et al.   NATURE

Viral precursor polyproteins: keys of regulation from replication to maturation

(2013) Samantha A Yost et al.   Current Opinion in Virology

Probing protein interactions with hydrogen/deuterium exchange and mass spectrometry—A review

(2012) Andrew J. Percy et al.   ANALYTICA CHIMICA ACTA

HDX Workbench: Software for the Analysis of H/D Exchange MS Data

(2012) Bruce D. Pascal et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Structural and functional insights into alphavirus polyprotein processing and pathogenesis

(2012) G. Shin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The prototype HIV-1 maturation inhibitor, bevirimat, binds to the CA-SP1 cleavage site in immature Gag particles

(2011) Albert T Nguyen et al.   Retrovirology

Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

(2010) Brendan MacLean et al.   BIOINFORMATICS

Determination of amide hydrogen exchange by mass spectrometry: A new tool for protein structure elucidation

(2010) Zhongqi Zhang et al.   PROTEIN SCIENCE

DAMMIF, a program for rapidab-initioshape determination in small-angle scattering

(2009) Daniel Franke et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

The Mannose 6-Phosphate Glycoprotein Proteome

(2008) David E. Sleat et al.   JOURNAL OF PROTEOME RESEARCH

Mechanisms of inhibition of HIV replication by non-nucleoside reverse transcriptase inhibitors

(2008) Nicolas Sluis-Cremer et al.   VIRUS RESEARCH

SARS-Coronavirus Replication Is Supported by a Reticulovesicular Network of Modified Endoplasmic Reticulum

(2008) Kèvin Knoops et al.   PLOS BIOLOGY